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Fusion gene ID: 35196 |
FusionGeneSummary for SNRPB_RAB4A |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: SNRPB_RAB4A | Fusion gene ID: 35196 | Hgene | Tgene | Gene symbol | SNRPB | RAB4A | Gene ID | 6628 | 5867 |
| Gene name | small nuclear ribonucleoprotein polypeptides B and B1 | RAB4A, member RAS oncogene family | |
| Synonyms | CCMS|COD|SNRPB1|Sm-B/B'|SmB/B'|SmB/SmB'|snRNP-B | HRES-1|HRES-1/RAB4|HRES1|RAB4 | |
| Cytomap | 20p13 | 1q42.13 | |
| Type of gene | protein-coding | protein-coding | |
| Description | small nuclear ribonucleoprotein-associated proteins B and B'B polypeptide of Sm proteinSm protein B/B'sm-B/Sm-B'small nuclear ribonucleoprotein polypeptide Bsmall nuclear ribonucleoprotein polypeptides B and B' | ras-related protein Rab-4AHTLV-1 related endogenous sequence | |
| Modification date | 20180523 | 20180523 | |
| UniProtAcc | P14678 | P20338 | |
| Ensembl transtripts involved in fusion gene | ENST00000438552, ENST00000381342, ENST00000339610, | ENST00000366690, ENST00000473894, | |
| Fusion gene scores | * DoF score | 1 X 1 X 1=1 | 2 X 1 X 2=4 |
| # samples | 1 | 2 | |
| ** MAII score | log2(1/1*10)=3.32192809488736 | log2(2/4*10)=2.32192809488736 | |
| Context | PubMed: SNRPB [Title/Abstract] AND RAB4A [Title/Abstract] AND fusion [Title/Abstract] | ||
| Functional or gene categories assigned by FusionGDB annotation | |||
| * DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
| Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Partner | Gene | GO ID | GO term | PubMed ID |
| Hgene | SNRPB | GO:0000387 | spliceosomal snRNP assembly | 18984161 |
| Hgene | SNRPB | GO:0000398 | mRNA splicing, via spliceosome | 28781166 |
| Hgene | SNRPB | GO:0006479 | protein methylation | 18495660 |
| Fusion gene information from three resources (ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018)) * All genome coordinats were lifted-over on hg19. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| Data type | Source | Cancer type | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| TCGA | LD | BLCA | TCGA-CU-A0YO-01A | SNRPB | chr20 | 2451334 | - | RAB4A | chr1 | 229422233 | + |
| * LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
| Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| ORF | Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| Frame-shift | ENST00000438552 | ENST00000366690 | SNRPB | chr20 | 2451334 | - | RAB4A | chr1 | 229422233 | + |
| 5CDS-intron | ENST00000438552 | ENST00000473894 | SNRPB | chr20 | 2451334 | - | RAB4A | chr1 | 229422233 | + |
| Frame-shift | ENST00000381342 | ENST00000366690 | SNRPB | chr20 | 2451334 | - | RAB4A | chr1 | 229422233 | + |
| 5CDS-intron | ENST00000381342 | ENST00000473894 | SNRPB | chr20 | 2451334 | - | RAB4A | chr1 | 229422233 | + |
| 5UTR-3CDS | ENST00000339610 | ENST00000366690 | SNRPB | chr20 | 2451334 | - | RAB4A | chr1 | 229422233 | + |
| 5UTR-intron | ENST00000339610 | ENST00000473894 | SNRPB | chr20 | 2451334 | - | RAB4A | chr1 | 229422233 | + |
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FusionProtFeatures for SNRPB_RAB4A |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| SNRPB | RAB4A |
| Core component of the spliceosomal U1, U2, U4 and U5small nuclear ribonucleoproteins (snRNPs), the building blocks ofthe spliceosome. Thereby, plays an important role in the splicingof cellular pre-mRNAs. Most spliceosomal snRNPs contain a commonset of Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF andSNRPG that assemble in a heptameric protein ring on the Sm site ofthe small nuclear RNA to form the core snRNP. As part of the U7snRNP it is involved in histone 3'-end processing.{ECO:0000269|PubMed:18984161}. | Protein transport. Probably involved in vesiculartraffic (By similarity). {ECO:0000250}. |
| Retention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at . * Minus value of BPloci means that the break pointn is located before the CDS. |
| - In-frame and retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| - In-frame and not-retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
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FusionGeneSequence for SNRPB_RAB4A |
| For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. (nt: nucleotides, aa: amino acids) |
| * Fusion amino acid sequences. |
| * Fusion transcript sequences (only coding sequence (CDS) region). |
| * Fusion transcript sequences (Full-length transcript). |
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FusionGenePPI for SNRPB_RAB4A |
| Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in . |
| Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160) |
| Hgene | Hgene's interactors | Tgene | Tgene's interactors |
| SNRPB | TOP3B, PRPF8, SNRNP200, KHK, DYNC1H1, SART3, GEMIN4, EFTUD2, HTATSF1, CLNS1A, WDR77, ASCC2, C14orf1, PSMA3, LGALS1, SNUPN, SMN1, WBP4, FNBP4, SF3A2, SNRPD3, COIL, DDX20, SMN2, MEPCE, AIRE, SRRM1, PRMT7, PRMT5, HCFC1, CUL3, CUL4A, CUL4B, CUL5, CUL2, CUL1, COPS5, DCUN1D1, CAND1, PRAME, CD2BP2, SNRPE, SNRPD1, SNRPD2, SNRPC, BARD1, MDC1, MAGOH, EIF4A3, SMURF1, UPF1, ADAR, FN1, LSM2, LSM8, IFIT1, IFIT2, IFIT3, NOS2, IL7R, PAN2, CD81, IGSF8, ICAM1, SKIV2L, SRPK2, SRPK3, PRPF4B, CDKN2A, SF3A3, NCS1, RPA1, RPA2, RPA3, LIN28A, HUWE1, TRIM23, DAB1, GOLGA2, PNMA1, CALCOCO2, RBPMS, TFIP11, SS18L1, BANP, CEP55, L3MBTL3, KRT40, RFX6, CUL7, OBSL1, SNRPA1, EPB41L3, RPS6KB2, EXOSC8, NLRP3, NANOG, USP9X, CRBN, SNRNP70, SNRPG, SNRPF, PRPF3, PRPF31, EAPP, SLC7A6OS, TSSC4, TRIM25, UBE2A, HEY1, YAP1 | RAB4A | CD2AP, PRKCI, KIF3B, TP53, RABEP1, RAB5A, GDI2, STX4, RAB7A, PIN1, RAB11FIP1, DYNC1LI1, ZFYVE28, HACE1, KCNA5, RUFY1, RBSN, BAG3, RABGAP1, PTTG1IP, IDH3A, GRIPAP1, RABEP2, ZNF830, VPS52, EXOC5, SCCPDH, EREG, GDI1, LAMP1, LRIG1, RAB2B, GRPR, SLC22A9 |
| - Retained PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
| - Lost PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
| - Retained PPIs, but lost function due to frame-shift fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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RelatedDrugs for SNRPB_RAB4A |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.0 2018-04-02) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for SNRPB_RAB4A |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Hgene | SNRPB | C0265342 | Cerebrocostomandibular Syndrome | 2 | ORPHANET;UNIPROT |
| Hgene | SNRPB | C0038356 | Stomach Neoplasms | 1 | CTD_human |
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