|
||||||
|
 | |
| |
| |
| |
| |
|
Fusion gene ID: 25946 |
FusionGeneSummary for PAPSS1_RAB13 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: PAPSS1_RAB13 | Fusion gene ID: 25946 | Hgene | Tgene | Gene symbol | PAPSS1 | RAB13 | Gene ID | 9061 | 5872 |
| Gene name | 3'-phosphoadenosine 5'-phosphosulfate synthase 1 | RAB13, member RAS oncogene family | |
| Synonyms | ATPSK1|PAPSS|SK1 | GIG4 | |
| Cytomap | 4q25 | 1q21.3 | |
| Type of gene | protein-coding | protein-coding | |
| Description | bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthase 13-prime-phosphoadenosine 5-prime-phosphosulfate synthase 1PAPS synthase 1PAPSS 1SK 1adenylyl-sulfate kinasesulfate adenylyltransferasesulfurylase kinase 1 | ras-related protein Rab-13RAS-associated protein RAB13cell growth-inhibiting gene 4 proteingrowth-inhibiting gene 4 protein | |
| Modification date | 20180523 | 20180523 | |
| UniProtAcc | O43252 | P51153 | |
| Ensembl transtripts involved in fusion gene | ENST00000265174, ENST00000511304, | ENST00000368575, ENST00000462680, | |
| Fusion gene scores | * DoF score | 4 X 4 X 2=32 | 6 X 4 X 4=96 |
| # samples | 4 | 6 | |
| ** MAII score | log2(4/32*10)=0.321928094887362 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | log2(6/96*10)=-0.678071905112638 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: PAPSS1 [Title/Abstract] AND RAB13 [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 | PAPSS1 | GO:0000103 | sulfate assimilation | 14747722 |
| Hgene | PAPSS1 | GO:0050428 | 3'-phosphoadenosine 5'-phosphosulfate biosynthetic process | 14747722|23207770 |
| 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 |
| ChiTaRS3.1 | DA811913 | PAPSS1 | chr4 | 108603212 | - | RAB13 | chr1 | 153958815 | - |
| * 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 |
| intron-5UTR | ENST00000265174 | ENST00000368575 | PAPSS1 | chr4 | 108603212 | - | RAB13 | chr1 | 153958815 | - |
| intron-intron | ENST00000265174 | ENST00000462680 | PAPSS1 | chr4 | 108603212 | - | RAB13 | chr1 | 153958815 | - |
| intron-5UTR | ENST00000511304 | ENST00000368575 | PAPSS1 | chr4 | 108603212 | - | RAB13 | chr1 | 153958815 | - |
| intron-intron | ENST00000511304 | ENST00000462680 | PAPSS1 | chr4 | 108603212 | - | RAB13 | chr1 | 153958815 | - |
Top |
FusionProtFeatures for PAPSS1_RAB13 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| PAPSS1 | RAB13 |
| Bifunctional enzyme with both ATP sulfurylase and APSkinase activity, which mediates two steps in the sulfateactivation pathway. The first step is the transfer of a sulfategroup to ATP to yield adenosine 5'-phosphosulfate (APS), and thesecond step is the transfer of a phosphate group from ATP to APSyielding 3'-phosphoadenylylsulfate (PAPS: activated sulfate donorused by sulfotransferase). In mammals, PAPS is the sole source ofsulfate; APS appears to be only an intermediate in the sulfate-activation pathway (PubMed:9576487, PubMed:9668121,PubMed:9648242, PubMed:14747722). Required for normal biosynthesisof sulfated L-selectin ligands in endothelial cells(PubMed:9576487). {ECO:0000269|PubMed:14747722,ECO:0000269|PubMed:9576487, ECO:0000269|PubMed:9648242,ECO:0000269|PubMed:9668121}. | The small GTPases Rab are key regulators ofintracellular membrane trafficking, from the formation oftransport vesicles to their fusion with membranes. Rabs cyclebetween an inactive GDP-bound form and an active GTP-bound formthat is able to recruit to membranes different sets of downstreameffectors directly responsible for vesicle formation, movement,tethering and fusion. That Rab is involved in endocytic recyclingand regulates the transport to the plasma membrane oftransmembrane proteins like the tight junction proteinOCLN/occludin. Thereby, it regulates the assembly and the activityof tight junctions. Moreover, it may also regulate tight junctionassembly by activating the PKA signaling pathway and byreorganizing the actin cytoskeleton through the activation of thedownstream effectors PRKACA and MICALL2 respectively. Through itsrole in tight junction assembly, may play a role in theestablishment of Sertoli cell barrier. Plays also a role inangiogenesis through regulation of endothelial cells chemotaxis.Also involved in neurite outgrowth. Has also been proposed to playa role in post-Golgi membrane trafficking from the TGN to therecycling endosome. Finally, it has been involved in insulin-induced transport to the plasma membrane of the glucosetransporter GLUT4 and therefore may play a role in glucosehomeostasis. {ECO:0000269|PubMed:12058051,ECO:0000269|PubMed:15096524, ECO:0000269|PubMed:15528189,ECO:0000269|PubMed:16525024, ECO:0000269|PubMed:18779367,ECO:0000269|PubMed:20008558}. |
| 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 |
Top |
FusionGeneSequence for PAPSS1_RAB13 |
| 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). |
Top |
FusionGenePPI for PAPSS1_RAB13 |
| 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 |
| - 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 |
Top |
RelatedDrugs for PAPSS1_RAB13 |
| 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 |
| Hgene | PAPSS1 | O43252 | DB09462 | Glycerin | Bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthase 1 | small molecule | approved|investigational |
Top |
RelatedDiseases for PAPSS1_RAB13 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
|