博资考细节
选择nccit的理由
20230819 CARPID
276 enriched 5’UTR proteins
187 enriched 3’UTR proteins
150个蛋白是二者交集
126 elements included exclusively in “5’UTR_NT”:
| 126 elements included exclusively in “5’UTR_NT”: |
| SH3BGRL3 |
| ARPC4-TTLL3 |
| HIST2H2AB |
| U2AF1 |
| GLIPR2 |
| SRP14 |
| MRPS36 |
| GJC1 |
| RAB6B |
| TAGLN3 |
| SNAP23 |
| SKP1 |
| BASP1 |
| H1F0 |
| GRTP1 |
| PPIA |
| ARPC1A |
| SNRPD3 |
| ARPC3 |
| HADHA |
| ARPC1B |
| ERVK-7 |
| MFGE8 |
| GNB2 |
| ARHGAP23 |
| HIST2H3PS2 |
| BANF1 |
| SRGAP2B |
| DSTN |
| CDC42 |
| FLOT2 |
| H3F3B |
| RAP1B |
| DLD |
| MYO19 |
| FLOT1 |
| JUP |
| ACTN3 |
| PPP1CC |
| TCP1 |
| CLIC4 |
| FMNL2 |
| VDAC2 |
| IMMT |
| PTBP1 |
| GNAI2 |
| NEXN |
| NOP56 |
| EFNA5 |
| CYFIP1 |
| PRDX1 |
| EIF3D |
| IGF2BP1 |
| PRKAR2A |
| SIPA1 |
| HNRNPAB |
| PEAK1 |
| AP2M1 |
| MYL6B |
| HSPA9 |
| CDH2 |
| GNB2L1 |
| DAPK3 |
| DSG2 |
| EEF2 |
| CTNNB1 |
| HADHB |
| SMPDL3B |
| CTNNA1 |
| RAP2C |
| SAMM50 |
| SFPQ |
| LYN |
| IQGAP1 |
| TRIOBP |
| GTF2I |
| CALD1 |
| CSNK2A1 |
| HIST1H2AH |
| NONO |
| PARP1 |
| CCT3 |
| CTNNA2 |
| RPL35 |
| OSBPL8 |
| SIPA1L2 |
| AP2A2 |
| RPS13 |
| TUFM |
| PPP1R12B |
| HNRNPK |
| EIF4A2 |
| XRCC6 |
| LRCH3 |
| DST |
| DDX1 |
| AP2B1 |
| DDX18 |
| RPL10 |
| KIF23 |
| SHROOM3 |
| HIST1H1C |
| COPA |
| HNRNPA1 |
| MATR3 |
| GLG1 |
| RPL8 |
| RPL21 |
| DOCK7 |
| ABCD3 |
| PRKDC |
| RPS23 |
| TWF1 |
| UACA |
| AP2A1 |
| TUBB2B |
| RPL32 |
| HNRNPC |
| MYO5C |
| CAPZB |
| RPL22 |
| RPS24 |
| RPLP0 |
| SLC25A5 |
| ARHGAP11A |
| RPS16 |
150 common elements in “5’UTR_NT” and “3’UTR_NT”:
| 150 common elements in “5’UTR_NT” and “3’UTR_NT”: |
| SKOR1 |
| RAC1 |
| DLST |
| ACTRT1 |
| RPL9 |
| CD59 |
| EFHD1 |
| ATP5O |
| OGDH |
| SRP9 |
| GNG12 |
| RPS4X |
| ACTR2 |
| RBPMS2 |
| DCTN6 |
| ACTR3 |
| MACF1 |
| RPS15 |
| FLNA |
| SH3BGRL2 |
| ALPL |
| CLTC |
| MYO1D |
| RPL26 |
| SPTAN1 |
| LRRFIP2 |
| MYO5A |
| THY1 |
| CGN |
| ARPC2 |
| ENO1 |
| ACTN4 |
| MYO5B |
| HNRNPA3 |
| MYO18A |
| L1TD1 |
| FLII |
| N4BP3 |
| HSPA5 |
| NAP1L1 |
| PRPF19 |
| RPS15A |
| FLNB |
| TJP1 |
| GJA1 |
| SIPA1L1 |
| TPM1 |
| PHGDH |
| DHX9 |
| GPC4 |
| U2AF2 |
| HSP90AB2P |
| SPTBN1 |
| EZR |
| ACTN1 |
| DNMT3B |
| PPP1CB |
| NUDC |
| GNB1 |
| ATP5B |
| DAPK1 |
| ATAD3A |
| GAS2L3 |
| RCN2 |
| TPM3 |
| DDX3X |
| SVIL |
| FASN |
| SPECC1 |
| HNRNPM |
| GNAI3 |
| SYNCRIP |
| LUZP1 |
| CFL1 |
| WDR1 |
| HSPA8 |
| LUC7L2 |
| MYO1B |
| RPL38 |
| ABLIM1 |
| AKAP2 |
| RPL17 |
| MYO1C |
| DDX5 |
| DDX21 |
| PPP1CA |
| PPP1R12A |
| TFRC |
| FBXO46 |
| MYO1E |
| SORBS2 |
| CAPZA1 |
| RPS2 |
| RPLP2 |
| CORO1B |
| FGD4 |
| KIAA1671 |
| SPECC1L |
| TRIM28 |
| DCTN5 |
| TPRN |
| AIF1L |
| SIPA1L3 |
| CALM2 |
| HNRNPU |
| RPL23 |
| MYO6 |
| ARHGAP21 |
| CAPZA2 |
| TMOD3 |
| HIST1H4A |
| PLS3 |
| CORO2A |
| HIST3H2BB |
| RPL4 |
| RPS8 |
| DCTN4 |
| SLC25A3 |
| RPLP1 |
| CORO1C |
| MYH14 |
| ACTR10 |
| HSP90AB1 |
| LMNB1 |
| RPS20 |
| CORO2B |
| PPP1R9A |
| EFHD2 |
| LIMA1 |
| RPL14 |
| ATP5C1 |
| RPL13A |
| MPRIP |
| MYL12A |
| MYH10 |
| MYL6 |
| RPL13 |
| HNRNPF |
| RPS10 |
| MYH9 |
| ACTG1 |
| PHB2 |
| RPS6 |
| RPL18 |
| TUBA1C |
| RPL27 |
| DBN1 |
| RPS3 |
| RPS27A |
| TUBB4B |
37 elements included exclusively in “3’UTR_NT”:
| 37 elements included exclusively in “3’UTR_NT”: |
| RBM39 |
| RBMX |
| TUBB6 |
| WDR87 |
| HNRNPH1 |
| RPS18 |
| NLRP2 |
| RPL19 |
| RPL27A |
| RPS5 |
| RPL7A |
| RPL30 |
| NES |
| RPL11 |
| RPL3 |
| PLEKHG3 |
| RPL6 |
| TWF2 |
| ATP5J2-PTCD1 |
| TUBB3 |
| RPS25 |
| RPL12 |
| FBL |
| PKM |
| SNRNP200 |
| RPL18A |
| RPS27L |
| RPL5 |
| RPS3A |
| XRCC5 |
| SRSF3 |
| ARGLU1 |
| RPS26 |
| RPL28 |
| ACTBL2 |
| ACTC1 |
| VDAC1 |
20230921 CARPID (nuclear)
127 enriched LINE1 5’UTR-associated proteins (p<0.05; Fold change>2)
| RPL12 |
| RPLP1 |
| RPS26 |
| RPLP2 |
| H1F0 |
| SREK1IP1 |
| ARPC5L |
| HNRNPAB |
| RAB1B |
| RPS5 |
| SLC16A1 |
| ACTN1.1 |
| PCBP1 |
| ACTN3 |
| HCCS |
| HNRNPL |
| PHB |
| SERPINB9 |
| CFL2 |
| HNRNPA3 |
| ATP5B |
| RBM14 |
| EEF1G |
| DSTN |
| PHGDH |
| MYH14 |
| HSPA5 |
| RPL26 |
| DNMT3B |
| MYO6 |
| HNRNPU |
| RPL4 |
| GAPDH |
| HNRNPM |
| GAS2L3 |
| SMARCA5 |
| YBX1 |
| HNRNPC |
| RPS23 |
| DHX9 |
| RPL7A |
| HSP90AB1 |
| CFL1 |
| PCBP2 |
| DDX5 |
| RPL10 |
| CAPZA1 |
| EFHD2 |
| RPL35 |
| IQGAP1 |
| RPS27A |
| WDR1 |
| IMPDH1 |
| TUBB2B |
| RPL36 |
| RPS20 |
| HIST1H2BN |
| TMOD3 |
| ACTB |
| HIST2H3PS2 |
| RPS25 |
| RPS8 |
| RPL19 |
| ACTN4.2 |
| TUBA1A |
| CCT6A |
| RPL24 |
| VIM |
| RPS2 |
| ACTN1 |
| RPL13 |
| HSPA8 |
| H3F3B |
| MYL6 |
| PHB2 |
| RPL23A |
| RPS16 |
| RPS9 |
| FAU |
| RPL27 |
| RPL13A |
| ACTR2 |
| CAPZB |
| RPL18 |
| PLS3 |
| SPATA16 |
| RPL22 |
| GPC4 |
| RPL7 |
| ARGLU1 |
| ARPC1B |
| TCP1 |
| TFRC |
| DDX3X |
| TAGLN3 |
| RPL14 |
| PKM |
| NAP1L1 |
| ATP5A1 |
| ARPC4-TTLL3 |
| RPL30 |
| RPS24 |
| CORO1C |
| ACTR3 |
| HNRNPD |
| NPM1 |
| HNRNPF |
| TWF1 |
| PRDX1 |
| RPL18A |
| HIST1H4A |
| TUBA1C |
| CAPZA2 |
| SLC25A5 |
| RAN |
| TUBB |
| ARPC1A |
| ACTN4 |
| HIST1H2AH |
| SH3BGRL2 |
| RPS3 |
| EFHD1 |
| RPL38 |
| NCL |
| RPLP0 |
| RPL27A |
| EEF1A1 |
20240321 MS2
371 elements in 5’UTR_EF1a
| GPN1 |
| DIABLO |
| AGTRAP |
| F5 |
| CPD |
| ARR3 |
| PSMB7 |
| TFE3 |
| ZCRB1 |
| NDUFA13 |
| DHRS7 |
| GLG1 |
| TPP1 |
| MT-CO3 |
| TMF1 |
| PDZD11 |
| TBCK |
| PAM16 |
| IGF2R |
| COX4I1 |
| TMEM41A |
| NDUFAF2 |
| CHCHD4 |
| CEP135 |
| ZNF300 |
| ZNF852 |
| FOXO3 |
| JPT1 |
| SMG8 |
| PYM1 |
| PSAP |
| ZMAT3 |
| MRPL47 |
| STK38 |
| B2M |
| GRHPR |
| FKBP15 |
| FMNL2 |
| OXCT1 |
| ZNF28 |
| EPHX2 |
| SDHA |
| PPP2R1B |
| FADS3 |
| RHOG |
| DERL2 |
| SNAPIN |
| LAMTOR3 |
| ARPC5L |
| AP3M2 |
| PACSIN3 |
| TMOD2 |
| PPM1J |
| SECISBP2L |
| RPLP1 |
| JMY |
| VTN |
| RCN1 |
| ZMPSTE24 |
| BTF3L4 |
| EXOSC6 |
| BORCS5 |
| NIP7 |
| NDUFB11 |
| HBB |
| CERS2 |
| MRPS2 |
| MTFP1 |
| ARPC4 |
| RPP25L |
| GSKIP |
| MIGA1 |
| ZSWIM9 |
| ZFTRAF1 |
| EMC8 |
| PDZD4 |
| SESN2 |
| HMGN1 |
| PMVK |
| RPS29 |
| ATP2B4 |
| KIAA0930 |
| RPS15 |
| UBE2T |
| ZNF146 |
| PDPR |
| LRCH2 |
| USP33 |
| SCP2 |
| HSPE1 |
| GOLGA5 |
| ARHGAP39 |
| FAH |
| ERP29 |
| GPX1 |
| METTL2A |
| HSD17B11 |
| PEX14 |
| SV2A |
| HMGN2 |
| MRPL39 |
| PPIP5K1 |
| NDC80 |
| STMN1 |
| BNIP3 |
| PGRMC2 |
| ZNF428 |
| BSG |
| GAK |
| ENOPH1 |
| ACAA2 |
| HINFP |
| ZBTB1 |
| ENO3 |
| RHOA |
| SRF |
| MKLN1 |
| AHSG |
| DNAAF10 |
| SCARB1 |
| FOXN3 |
| TIMM21 |
| PFDN1 |
| NAPG |
| TPI1 |
| PTMS |
| TMEM256 |
| LRRC57 |
| MYH11 |
| DYNC1I2 |
| SET |
| MED7 |
| ZDHHC18 |
| SSR1 |
| SDHB |
| TSC1 |
| ADD3 |
| PAFAH1B2 |
| LSM6 |
| ZNF652 |
| CALU |
| PTMA |
| YBX1 |
| RTN4 |
| KDM3A |
| EIF1AY;EIF1AX |
| ATP1B3 |
| LSM5 |
| HINT3 |
| VPS36 |
| COX5A |
| CALM1;CALM2;CALM3 |
| EIF4E |
| APP |
| ERMP1 |
| TPD52 |
| TIMM23 |
| TXNDC17 |
| CCDC124 |
| FLNC |
| CIAO3 |
| CCDC85A |
| ZBED4 |
| MCM9 |
| EEF1D |
| JRKL |
| MICU1 |
| PFKFB3 |
| SAMM50 |
| PCIF1 |
| CHMP1A |
| SUCLG1 |
| PDIA3 |
| RRS1 |
| NUP37 |
| LDHA |
| AIMP1 |
| RPS19 |
| HBA2 |
| MOCS2 |
| ZFYVE16 |
| RSAD1 |
| HLA-A |
| PDIA6 |
| BASP1 |
| HADHB |
| PJA2 |
| TIGD2 |
| CYB5R3 |
| IARS1 |
| ENO1 |
| ZNF90 |
| SGPL1 |
| ASCC2 |
| MAP3K4 |
| PGK1 |
| RPLP2 |
| RPF2 |
| PPP1R14B |
| GSTO1 |
| BCAP31 |
| UPRT |
| PPIB |
| FLNA |
| HSPA14 |
| SRP14 |
| ZNF496 |
| AIMP2 |
| RBM41 |
| HMGA1 |
| DCXR |
| DCTN4 |
| MAP4K2 |
| RMDN3 |
| DNAJB11 |
| ZFAND6 |
| ATP5PO |
| HCFC2 |
| AKR1B1 |
| STX8 |
| ANP32B |
| KIF17 |
| RNASEH2A |
| UBA52 |
| SPAST |
| ELL2 |
| DPH1 |
| ZNF581 |
| SEC23IP |
| DARS1 |
| DPP3 |
| FKBP3 |
| MIER2 |
| LDHB |
| PKP2 |
| THAP4 |
| UBE2K |
| SEC16A |
| DIP2A |
| MYL1;MYL3 |
| EIF2S1 |
| BACH1 |
| ZNF775 |
| MARS1 |
| ALYREF |
| CIZ1 |
| NME2 |
| CAMK2B |
| DBN1 |
| QARS1 |
| SUMO2 |
| RARS1 |
| EPRS1 |
| CHCHD2P9;CHCHD2 |
| RPS6 |
| PSMD2 |
| CKAP4 |
| PBXIP1 |
| SRP9 |
| EIF2S2 |
| CDIPT |
| CHMP5 |
| RANBP1 |
| RPSA |
| ALB |
| SNX18 |
| SLMAP |
| RBM34 |
| NTPCR |
| RBM28 |
| NEMF |
| UNC45A |
| HSP90B1 |
| ABT1 |
| MIB1 |
| BANP |
| SUPT16H |
| WASL |
| CCT3 |
| CKB |
| TMEM214 |
| HOMER1 |
| LARS1 |
| ROR1 |
| OTUD6B |
| VCL |
| RBFA |
| GOLGB1 |
| RANBP2 |
| PAFAH1B1 |
| SPAG5 |
| RPL26L1 |
| EZR |
| EEF1E1 |
| PSMC2 |
| SLC25A24 |
| RRN3 |
| PLEKHG4 |
| ATAD3A |
| MTIF2 |
| FLNB |
| ACTR3 |
| SLC25A22 |
| LRRC59 |
| PSMD13 |
| ZMAT2 |
| SLF2 |
| RPL14 |
| WNK3 |
| PARK7 |
| PSMD11 |
| PTGES3 |
| YWHAZ |
| MYH10 |
| HSD17B4 |
| KPNB1 |
| SSRP1 |
| UBE2N |
| PSMC4 |
| ECH1 |
| PSMD9 |
| TBCD |
| EHD4 |
| NOP2 |
| MTDH |
| PSMC6 |
| SNX9 |
| ZCCHC4 |
| SRP68 |
| EAF1 |
| EBNA1BP2 |
| RPS13 |
| GRWD1 |
| SARNP |
| MED21 |
| EDC3 |
| ANXA5 |
| MRE11 |
| PDCD7 |
| PSMA4 |
| GFPT1 |
| DPYSL3 |
| DMXL1 |
| PPME1 |
| PRKACB |
| SPTBN1 |
| EBP |
| KEAP1 |
| HSP90AB2P |
| IQGAP2 |
| NFKB2 |
| CPT2 |
| SLC30A7 |
| ARG1 |
| NLN |
| TRIM26 |
| SKP1 |
| ZNF574 |
| TUBA1C |
| SNRNP40 |
| PSMC5 |
| RAB21 |
| FGD6 |
| RAB12 |
| CLIC1 |
| TTLL12 |
| RSBN1 |
| TBC1D2 |
| NCKAP1 |
| RPL35A |
| CHD1 |
159 elements in Full_EF1a
| GPN1 |
| DIABLO |
| AGTRAP |
| CPD |
| ARR3 |
| TMF1 |
| TBCK |
| SCAMP4 |
| DHRS7 |
| KLHL12 |
| NDUFA13 |
| TPP1 |
| IGF2R |
| PAM16 |
| FOXO3 |
| TMEM41A |
| COX4I1 |
| GLG1 |
| SOX3 |
| PDZD11 |
| TRAPPC2L |
| JPT1 |
| KDF1 |
| NDUFAF2 |
| CHCHD4 |
| MT-CO3 |
| OXCT1 |
| ZMAT3 |
| MCF2L |
| SPRR2E;SPRR2D;SPRR2B;SPRR2A;SPRR2G |
| FMNL2 |
| CEP135 |
| B2M |
| STK38 |
| ZNF852 |
| PYM1 |
| GRHPR |
| FKBP15 |
| AIRE |
| ZNF28 |
| ARPC5L |
| EXOSC6 |
| CAMK2G |
| RPLP1 |
| MAP1LC3B2;MAP1LC3B;MAP1LC3A |
| GOLGA5 |
| RPP25L |
| HBB |
| ARL8B |
| PDZD4 |
| RCN1 |
| ZFP36L2 |
| BSG |
| H2AC19 |
| MYL6 |
| SET |
| STUB1 |
| OSTC |
| ATP1B3 |
| SFMBT2 |
| SESN2 |
| ERP29 |
| TOM1L1 |
| ENO3 |
| GSKIP |
| HMGN1 |
| TPI1 |
| BASP1 |
| ACD |
| RPS15 |
| STMN1 |
| H3C13 |
| ACAA2 |
| PPM1J |
| HSPE1 |
| APP |
| TIGD2 |
| ENO1 |
| H2BC12;H2BC5;H2BC10;H2BC18;H2BC9;H2BC15;H2BC14 |
| LAMP1 |
| YBX1 |
| SCARB1 |
| PDIA3 |
| RPLP2 |
| SARS1 |
| EEF1D |
| PTMA |
| P4HB |
| PPP1R9A |
| LIN7A;LIN7B;LIN7C |
| MYH10 |
| LDHB |
| SSR1 |
| RPSA |
| LRRC57 |
| TXNDC17 |
| MYL1;MYL3 |
| L1RE1 |
| SGPL1 |
| CS |
| PGK1 |
| ELL2 |
| MAP3K4 |
| RNPS1 |
| PSAT1 |
| MDH2 |
| MYH9 |
| PCIF1 |
| RPS19 |
| LDHA |
| EEA1 |
| MAP4K2 |
| EBP |
| RPLP0 |
| HSD17B4 |
| UCKL1 |
| DPYSL3 |
| BCAP31 |
| CLTC |
| PAWR |
| SHC1 |
| RAP2B |
| GEMIN2 |
| MIB1 |
| ERMP1 |
| CCT3 |
| YWHAZ |
| ACTR3 |
| ADD3 |
| STX8 |
| SMARCA2 |
| TMEM214 |
| MAEA |
| AIMP1 |
| MCM10 |
| SRRM2 |
| RANBP1 |
| NAP1L1 |
| TPM3 |
| SNX18 |
| RPF2 |
| ESRP1 |
| ARG1 |
| EZR |
| PAK4 |
| RNPEP |
| SRP14 |
| KEAP1 |
| SLMAP |
| TAF9 |
| SREK1 |
| C1orf131 |
| EIF4B |
| STK10 |
| SARNP |
| ALPL |
| PGM1 |
| SAAL1 |
| DDX59 |
101 elements in both 5UTR_EF1a and Full_EF1a
| ENO3 |
| SLMAP |
| YBX1 |
| GSKIP |
| ACTR3 |
| OXCT1 |
| MYL1;MYL3 |
| ENO1 |
| PTMA |
| NDUFA13 |
| JPT1 |
| ADD3 |
| TMEM41A |
| MAP4K2 |
| ZNF852 |
| TIGD2 |
| SRP14 |
| PPM1J |
| ERP29 |
| CEP135 |
| HMGN1 |
| CPD |
| SET |
| ARPC5L |
| PDZD11 |
| LDHA |
| STX8 |
| BASP1 |
| MYH10 |
| RPP25L |
| PDIA3 |
| RANBP1 |
| SARNP |
| ARG1 |
| B2M |
| TBCK |
| SNX18 |
| ARR3 |
| NDUFAF2 |
| TPP1 |
| TMEM214 |
| MT-CO3 |
| ZNF28 |
| DHRS7 |
| EEF1D |
| IGF2R |
| TPI1 |
| GRHPR |
| COX4I1 |
| SGPL1 |
| PDZD4 |
| ELL2 |
| EXOSC6 |
| LRRC57 |
| DIABLO |
| GOLGA5 |
| RPLP1 |
| FOXO3 |
| RCN1 |
| HSD17B4 |
| SCARB1 |
| AIMP1 |
| FMNL2 |
| BCAP31 |
| LDHB |
| STK38 |
| KEAP1 |
| ACAA2 |
| PAM16 |
| TXNDC17 |
| ATP1B3 |
| RPLP2 |
| SESN2 |
| EZR |
| ERMP1 |
| CCT3 |
| PYM1 |
| HSPE1 |
| CHCHD4 |
| GPN1 |
| TMF1 |
| GLG1 |
| MIB1 |
| RPS19 |
| RPSA |
| DPYSL3 |
| ZMAT3 |
| STMN1 |
| FKBP15 |
| AGTRAP |
| APP |
| MAP3K4 |
| RPF2 |
| HBB |
| SSR1 |
| EBP |
| BSG |
| YWHAZ |
| PGK1 |
| PCIF1 |
| RPS15 |
CARPID150 with MCP-MS101
用第一次CARPID的5UTR和3UTR的150 elements
与
MCP-MS2的5UTR和full的101 elements取交集
有7个proteins: ACTR3 ENO1 RPLP1 RPLP2 EZR MYH10 RPS15
CARPID276+CARPID127 with MCP-MS371
用第一次CARPID的5UTR (276)与第二次CARPID的5UTR(127)
与
MCP-MS2的5UTR(371)取交集
有29个proteins:
- 5: ACTR3 RPLP1 TUBA1C RPLP2 RPL14
- 2: YBX1 ARPC5L
- 22: DCTN4 SRP14 RPS6 BASP1 SKP1 HSP90AB2P SPTBN1 SAMM50 EZR CCT3 GLG1 DBN1 RPS13 HADHB ENO1 MYH10 FLNB FMNL2 FLNA ATAD3A SRP9 RPS15
逐个看一下这29个proteins的功能
核糖体相关：
RPLP1, RPLP2, RPL14, RPS6, RPS13, RPS15形成processed pseudogenes.
RPLP1, RPLP2, RPL14都是核糖体60S亚基的组分。
RPS6, RPS13, RPS15是核糖体40S亚基的组分。
SRP9, SRP14已知跟核糖体有相互作用。
细胞骨架相关：
ACTR3
TUBA1C
ARPC5L
DCTN4: located in centromere
SPTBN1: an actin crosslinking and molecular scaffold protein that links the plasma membrane to the actin cytoskeleton.
EZR: As a member of the ERM protein family, this protein serves as an intermediate between the plasma membrane and the actin cytoskeleton. 有1个pseudogene.
CCT3: The complex folds various proteins, including actin and tubulin. 有1个pseudogene.
DBN1: The protein encoded by this gene is a cytoplasmic actin-binding protein thought to play a role in the process of neuronal growth
MYH10: myosin superfamily, actin-dependent motor proteins.
FLNB: a member of the filamin family. binds the actin cytoskeleton.
FLNA: The protein encoded by this gene is an actin-binding protein that crosslinks actin filaments and links actin filaments to membrane glycoproteins.
FMNL2: formin-related proteins (成蛋白)
Exosome:
HSP90AB2P, lcoated in extracellular exosome.
ARPC5L, Located in extracellular exosome and focal adhesion.
Mitochondria:
ATAD3A: This gene encodes a ubiquitously expressed mitochondrial membrane protein
SAMM50, This gene encodes a component of the Sorting and Assembly Machinery (SAM) of the mitochondrial outer membrane
HADHB, This gene encodes the beta subunit of the mitochondrial trifunctional protein, which catalyzes the last three steps of mitochondrial beta-oxidation of long chain fatty acids. The mitochondrial membrane-bound heterocomplex is composed of four alpha and four beta subunits, with the beta subunit catalyzing the 3-ketoacyl-CoA thiolase activity. The encoded protein can also bind RNA and decreases the stability of some mRNAs.
ATAD3A, This gene encodes a ubiquitously expressed mitochondrial membrane protein that contributes to mitochondrial dynamics, nucleoid organization, protein translation, cell growth, and cholesterol metabolism.
其他：
YBX1 is both DNA and RNA binding protein. YBX-1形成pseudogenes. a component of messenger ribonucleoprotein (mRNP) complexes
SRP14: RNA binding activity
SRP9: RNA binding activity
BASP1看似无关
SAMM50看似无关
GLG1看似无关
Skp1, SCF complex组分（E3泛素连接酶）. 有1个pseudogene
| ACTR3 | The specific function of this gene has not yet been determined; however, the protein it encodes is known to be a major constituent of the ARP2/3 complex. This complex is located at the cell surface and is essential to cell shape and motility through lamellipodial actin assembly and protrusion. Three transcript variants encoding two different isoforms have been found for this gene. [provided by RefSeq, Mar 2013] |
| RPLP1 | Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal phosphoprotein that is a component of the 60S subunit. The protein, which is a functional equivalent of the E. coli L7/L12 ribosomal protein, belongs to the L12P family of ribosomal proteins. It plays an important role in the elongation step of protein synthesis. Unlike most ribosomal proteins, which are basic, the encoded protein is acidic. Its C-terminal end is nearly identical to the C-terminal ends of the ribosomal phosphoproteins P0 and P2. The P1 protein can interact with P0 and P2 to form a pentameric complex consisting of P1 and P2 dimers, and a P0 monomer. The protein is located in the cytoplasm. Two alternatively spliced transcript variants that encode different proteins have been observed. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. [provided by RefSeq, Jul 2008] |
| TUBA1C | Predicted to enable GTP binding activity. Predicted to be a structural constituent of cytoskeleton. Predicted to be involved in microtubule cytoskeleton organization and mitotic cell cycle. Located in microtubule cytoskeleton and nucleus. [provided by Alliance of Genome Resources, Apr 2022] |
| RPLP2 | Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal phosphoprotein that is a component of the 60S subunit. The protein, which is a functional equivalent of the E. coli L7/L12 ribosomal protein, belongs to the L12P family of ribosomal proteins. It plays an important role in the elongation step of protein synthesis. Unlike most ribosomal proteins, which are basic, the encoded protein is acidic. Its C-terminal end is nearly identical to the C-terminal ends of the ribosomal phosphoproteins P0 and P1. The P2 protein can interact with P0 and P1 to form a pentameric complex consisting of P1 and P2 dimers, and a P0 monomer. The protein is located in the cytoplasm. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. [provided by RefSeq, Jul 2008] |
| RPL14 | Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal protein that is a component of the 60S subunit. The protein belongs to the L14E family of ribosomal proteins. It contains a basic region-leucine zipper (bZIP)-like domain. The protein is located in the cytoplasm. This gene contains a trinucleotide (GCT) repeat tract whose length is highly polymorphic; these triplet repeats result in a stretch of alanine residues in the encoded protein. Transcript variants utilizing alternative polyA signals and alternative 5′-terminal exons exist but all encode the same protein. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. [provided by RefSeq, Jul 2008] |
| YBX1 | This gene encodes a highly conserved cold shock domain protein that has broad nucleic acid binding properties. The encoded protein functions as both a DNA and RNA binding protein and has been implicated in numerous cellular processes including regulation of transcription and translation, pre-mRNA splicing, DNA reparation and mRNA packaging. This protein is also a component of messenger ribonucleoprotein (mRNP) complexes and may have a role in microRNA processing. This protein can be secreted through non-classical pathways and functions as an extracellular mitogen. Aberrant expression of the gene is associated with cancer proliferation in numerous tissues. This gene may be a prognostic marker for poor outcome and drug resistance in certain cancers. Alternate splicing results in multiple transcript variants. Pseudogenes of this gene are found on multiple chromosomes. [provided by RefSeq, Sep 2015] |
| ARPC5L | Predicted to enable actin filament binding activity. Predicted to be involved in Arp2/3 complex-mediated actin nucleation and cell migration. Located in extracellular exosome and focal adhesion. [provided by Alliance of Genome Resources, Apr 2022] |
| DCTN4 | Enables protein N-terminus binding activity. Located in centrosome. |
| SRP14 | Enables RNA binding activity. Involved in protein targeting to ER. Located in nucleus. Part of signal recognition particle, endoplasmic reticulum targeting. |
| RPS6 | Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a cytoplasmic ribosomal protein that is a component of the 40S subunit. The protein belongs to the S6E family of ribosomal proteins. It is the major substrate of protein kinases in the ribosome, with subsets of five C-terminal serine residues phosphorylated by different protein kinases. Phosphorylation is induced by a wide range of stimuli, including growth factors, tumor-promoting agents, and mitogens. Dephosphorylation occurs at growth arrest. The protein may contribute to the control of cell growth and proliferation through the selective translation of particular classes of mRNA. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. |
| BASP1 | This gene encodes a membrane bound protein with several transient phosphorylation sites and PEST motifs. Conservation of proteins with PEST sequences among different species supports their functional significance. PEST sequences typically occur in proteins with high turnover rates. Immunological characteristics of this protein are species specific. This protein also undergoes N-terminal myristoylation. Alternative splicing results in multiple transcript variants that encode the same protein. |
| SKP1 | This gene encodes a component of SCF complexes, which are composed of this protein, cullin 1, a ring-box protein, and one member of the F-box family of proteins. This protein binds directly to the F-box motif found in F-box proteins. SCF complexes are involved in the regulated ubiquitination of specific protein substrates, which targets them for degradation by the proteosome. Specific F-box proteins recognize different target protein(s), and many specific SCF substrates have been identified including regulators of cell cycle progression and development. Studies have also characterized the protein as an RNA polymerase II elongation factor. Alternative splicing of this gene results in two transcript variants. A related pseudogene has been identified on chromosome 7. [provided by RefSeq, Jul 2008] |
| HSP90AB2P | Predicted to enable ATP binding activity; disordered domain specific binding activity; and unfolded protein binding activity. Predicted to be involved in cellular response to heat; protein folding; and protein stabilization. Located in extracellular exosome. |
| SPTBN1 | Spectrin is an actin crosslinking and molecular scaffold protein that links the plasma membrane to the actin cytoskeleton, and functions in the determination of cell shape, arrangement of transmembrane proteins, and organization of organelles. It is composed of two antiparallel dimers of alpha- and beta- subunits. This gene is one member of a family of beta-spectrin genes. The encoded protein contains an N-terminal actin-binding domain, and 17 spectrin repeats which are involved in dimer formation. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008] |
| SAMM50 | This gene encodes a component of the Sorting and Assembly Machinery (SAM) of the mitochondrial outer membrane. The Sam complex functions in the assembly of beta-barrel proteins into the outer mitochondrial membrane.[provided by RefSeq, Jun 2011] |
| EZR | The cytoplasmic peripheral membrane protein encoded by this gene functions as a protein-tyrosine kinase substrate in microvilli. As a member of the ERM protein family, this protein serves as an intermediate between the plasma membrane and the actin cytoskeleton. This protein plays a key role in cell surface structure adhesion, migration and organization, and it has been implicated in various human cancers. A pseudogene located on chromosome 3 has been identified for this gene. Alternatively spliced variants have also been described for this gene. [provided by RefSeq, Jul 2008] |
| CCT3 | The protein encoded by this gene is a molecular chaperone that is a member of the chaperonin containing TCP1 complex (CCT), also known as the TCP1 ring complex (TRiC). This complex consists of two identical stacked rings, each containing eight different proteins. Unfolded polypeptides enter the central cavity of the complex and are folded in an ATP-dependent manner. The complex folds various proteins, including actin and tubulin. Alternate transcriptional splice variants have been characterized for this gene. In addition, a pseudogene of this gene has been found on chromosome 8. [provided by RefSeq, Aug 2010] |
| GLG1 | Predicted to enable fibroblast growth factor binding activity. Predicted to act upstream of or within several processes, including negative regulation of protein processing; negative regulation of transforming growth factor beta receptor signaling pathway; and regulation of chondrocyte differentiation. Located in Golgi apparatus. [provided by Alliance of Genome Resources, Apr 2022] |
| DBN1 | The protein encoded by this gene is a cytoplasmic actin-binding protein thought to play a role in the process of neuronal growth. It is a member of the drebrin family of proteins that are developmentally regulated in the brain. A decrease in the amount of this protein in the brain has been implicated as a possible contributing factor in the pathogenesis of memory disturbance in Alzheimer’s disease. At least two alternative splice variants encoding different protein isoforms have been described for this gene. [provided by RefSeq, Jul 2008] |
| RPS13 | Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal protein that is a component of the 40S subunit. The protein belongs to the S15P family of ribosomal proteins. It is located in the cytoplasm. The protein has been shown to bind to the 5.8S rRNA in rat. The gene product of the E. coli ortholog (ribosomal protein S15) functions at early steps in ribosome assembly. This gene is co-transcribed with two U14 small nucleolar RNA genes, which are located in its third and fifth introns. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. [provided by RefSeq, Jul 2008] |
| HADHB | This gene encodes the beta subunit of the mitochondrial trifunctional protein, which catalyzes the last three steps of mitochondrial beta-oxidation of long chain fatty acids. The mitochondrial membrane-bound heterocomplex is composed of four alpha and four beta subunits, with the beta subunit catalyzing the 3-ketoacyl-CoA thiolase activity. The encoded protein can also bind RNA and decreases the stability of some mRNAs. The genes of the alpha and beta subunits of the mitochondrial trifunctional protein are located adjacent to each other in the human genome in a head-to-head orientation. Mutations in this gene result in trifunctional protein deficiency. Alternatively spliced transcript variants encoding different isoforms have been described. [provided by RefSeq, Jul 2013] |
| ENO1 | This gene encodes alpha-enolase, one of three enolase isoenzymes found in mammals. Each isoenzyme is a homodimer composed of 2 alpha, 2 gamma, or 2 beta subunits, and functions as a glycolytic enzyme. Alpha-enolase in addition, functions as a structural lens protein (tau-crystallin) in the monomeric form. Alternative splicing of this gene results in a shorter isoform that has been shown to bind to the c-myc promoter and function as a tumor suppressor. Several pseudogenes have been identified, including one on the long arm of chromosome 1. Alpha-enolase has also been identified as an autoantigen in Hashimoto encephalopathy. [provided by RefSeq, Jan 2011] |
| MYH10 | This gene encodes a member of the myosin superfamily. The protein represents a conventional non-muscle myosin; it should not be confused with the unconventional myosin-10 (MYO10). Myosins are actin-dependent motor proteins with diverse functions including regulation of cytokinesis, cell motility, and cell polarity. Mutations in this gene have been associated with May-Hegglin anomaly and developmental defects in brain and heart. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Dec 2011] |
| FLNB | This gene encodes a member of the filamin family. The encoded protein interacts with glycoprotein Ib alpha as part of the process to repair vascular injuries. The platelet glycoprotein Ib complex includes glycoprotein Ib alpha, and it binds the actin cytoskeleton. Mutations in this gene have been found in several conditions: atelosteogenesis type 1 and type 3; boomerang dysplasia; autosomal dominant Larsen syndrome; and spondylocarpotarsal synostosis syndrome. Multiple alternatively spliced transcript variants that encode different protein isoforms have been described for this gene. [provided by RefSeq, Nov 2009] |
| FMNL2 | This gene encodes a formin-related protein. Formin-related proteins have been implicated in morphogenesis, cytokinesis, and cell polarity. Alternatively spliced transcript variants encoding different isoforms have been described but their full-length nature has yet to be determined. [provided by RefSeq, Jul 2008] |
| FLNA | The protein encoded by this gene is an actin-binding protein that crosslinks actin filaments and links actin filaments to membrane glycoproteins. The encoded protein is involved in remodeling the cytoskeleton to effect changes in cell shape and migration. This protein interacts with integrins, transmembrane receptor complexes, and second messengers. Defects in this gene are a cause of several syndromes, including periventricular nodular heterotopias (PVNH1, PVNH4), otopalatodigital syndromes (OPD1, OPD2), frontometaphyseal dysplasia (FMD), Melnick-Needles syndrome (MNS), and X-linked congenital idiopathic intestinal pseudoobstruction (CIIPX). Two transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Mar 2009] |
| ATAD3A | This gene encodes a ubiquitously expressed mitochondrial membrane protein that contributes to mitochondrial dynamics, nucleoid organization, protein translation, cell growth, and cholesterol metabolism. This gene is a member of the ATPase family AAA-domain containing 3 gene family which, in humans, includes two other paralogs. Naturally occurring mutations in this gene are associated with distinct neurological syndromes including Harel-Yoon syndrome. High-level expression of this gene is associated with poor survival in breast cancer patients. A homozygous knockout of the orthologous gene in mice results in embryonic lethality at day 7.5 due to growth retardation and defective development of the trophoblast lineage. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Feb 2017] |
| SRP9 | Predicted to enable RNA binding activity and signal recognition particle binding activity. Predicted to be involved in SRP-dependent cotranslational protein targeting to membrane. Predicted to be located in cytosol. Predicted to be part of signal recognition particle, endoplasmic reticulum targeting. [provided by Alliance of Genome Resources, Apr 2022] |
| RPS13 | Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal protein that is a component of the 40S subunit. The protein belongs to the S19P family of ribosomal proteins. It is located in the cytoplasm. This gene has been found to be activated in various tumors, such as insulinomas, esophageal cancers, and colon cancers. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2015] |