FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact
Center for Computational Systems Medicine
leaf

Fusion Gene Summary

leaf

Fusion Gene ORF analysis

leaf

Fusion Genomic Features

leaf

Fusion Protein Features

leaf

Fusion Gene Sequence

leaf

Fusion Gene PPI analysis

leaf

Related Drugs

leaf

Related Diseases

Fusion gene:SLC39A1-RAB13 (FusionGDB2 ID:82549)

Fusion Gene Summary for SLC39A1-RAB13

check button Fusion gene summary
Fusion gene informationFusion gene name: SLC39A1-RAB13
Fusion gene ID: 82549
HgeneTgene
Gene symbol

SLC39A1

RAB13

Gene ID

27173

5872

Gene namesolute carrier family 39 member 1RAB13, member RAS oncogene family
SynonymsZIP1|ZIRTLGIG4
Cytomap

1q21.3

1q21.3

Type of geneprotein-codingprotein-coding
Descriptionzinc transporter ZIP1solute carrier family 39 (zinc transporter), member 1solute carrier family 39 (zinc transporter), member 3zrt- and Irt-like protein 1ras-related protein Rab-13RAS-associated protein RAB13cell growth-inhibiting gene 4 proteingrowth-inhibiting gene 4 protein
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000356205, ENST00000368623, 
ENST00000368621, ENST00000310483, 
ENST00000537590, ENST00000461071, 
ENST00000368575, ENST00000462680, 
Fusion gene scores* DoF score4 X 4 X 3=487 X 5 X 4=140
# samples 48
** MAII scorelog2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(8/140*10)=-0.807354922057604
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SLC39A1 [Title/Abstract] AND RAB13 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointSLC39A1(153934696)-RAB13(153957257), # samples:1
Anticipated loss of major functional domain due to fusion event.SLC39A1-RAB13 seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted ORF.
SLC39A1-RAB13 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
SLC39A1-RAB13 seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID

check buttonFusion gene breakpoints across SLC39A1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across RAB13 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4LUSCTCGA-43-2576-01ASLC39A1chr1

153934696

-RAB13chr1

153957257

-


Top

Fusion Gene ORF analysis for SLC39A1-RAB13

check button 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.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
Frame-shiftENST00000356205ENST00000368575SLC39A1chr1

153934696

-RAB13chr1

153957257

-
5CDS-5UTRENST00000356205ENST00000462680SLC39A1chr1

153934696

-RAB13chr1

153957257

-
Frame-shiftENST00000368623ENST00000368575SLC39A1chr1

153934696

-RAB13chr1

153957257

-
5CDS-5UTRENST00000368623ENST00000462680SLC39A1chr1

153934696

-RAB13chr1

153957257

-
In-frameENST00000368621ENST00000368575SLC39A1chr1

153934696

-RAB13chr1

153957257

-
5CDS-5UTRENST00000368621ENST00000462680SLC39A1chr1

153934696

-RAB13chr1

153957257

-
Frame-shiftENST00000310483ENST00000368575SLC39A1chr1

153934696

-RAB13chr1

153957257

-
5CDS-5UTRENST00000310483ENST00000462680SLC39A1chr1

153934696

-RAB13chr1

153957257

-
intron-3CDSENST00000537590ENST00000368575SLC39A1chr1

153934696

-RAB13chr1

153957257

-
intron-5UTRENST00000537590ENST00000462680SLC39A1chr1

153934696

-RAB13chr1

153957257

-
intron-3CDSENST00000461071ENST00000368575SLC39A1chr1

153934696

-RAB13chr1

153957257

-
intron-5UTRENST00000461071ENST00000462680SLC39A1chr1

153934696

-RAB13chr1

153957257

-

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

Top

Fusion Genomic Features for SLC39A1-RAB13


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

Top

Fusion Protein Features for SLC39A1-RAB13


check button Go to

FGviewer for the breakpoints of chr1:153934696-chr1:153957257

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
..
FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

check buttonRetention 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

download page


* 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.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-451_30106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-4552_68106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-4590_104106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-341_30106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-3452_68106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-3490_104106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-341_30106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-3452_68106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-3490_104106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-231_30106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-2352_68106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-2390_104106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-4531_51106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-4569_89106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-3431_51106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-3469_89106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-3431_51106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-3469_89106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-2331_51106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-2369_89106.0325.0TransmembraneHelical
TgeneRAB13chr1:153934696chr1:153957257ENST0000036857508121_12441.333333333333336204.0Nucleotide bindingGTP
TgeneRAB13chr1:153934696chr1:153957257ENST000003685750863_6741.333333333333336204.0Nucleotide bindingGTP

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-45190_191106.0325.0RegionHeavy metals binding
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-34190_191106.0325.0RegionHeavy metals binding
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-34190_191106.0325.0RegionHeavy metals binding
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-23190_191106.0325.0RegionHeavy metals binding
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-45126_179106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-45201_206106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-45228_237106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-45259_272106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-45294_303106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-34126_179106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-34201_206106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-34228_237106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-34259_272106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-34294_303106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-34126_179106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-34201_206106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-34228_237106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-34259_272106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-34294_303106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-23126_179106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-23201_206106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-23228_237106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-23259_272106.0325.0Topological domainExtracellular
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-23294_303106.0325.0Topological domainCytoplasmic
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-45105_125106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-45180_200106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-45207_227106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-45238_258106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-45273_293106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000310483-45304_324106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-34105_125106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-34180_200106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-34207_227106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-34238_258106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-34273_293106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000356205-34304_324106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-34105_125106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-34180_200106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-34207_227106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-34238_258106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-34273_293106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368621-34304_324106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-23105_125106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-23180_200106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-23207_227106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-23238_258106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-23273_293106.0325.0TransmembraneHelical
HgeneSLC39A1chr1:153934696chr1:153957257ENST00000368623-23304_324106.0325.0TransmembraneHelical
TgeneRAB13chr1:153934696chr1:153957257ENST000003685750837_4541.333333333333336204.0MotifEffector region
TgeneRAB13chr1:153934696chr1:153957257ENST000003685750815_2241.333333333333336204.0Nucleotide bindingGTP


Top

Fusion Gene Sequence for SLC39A1-RAB13


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

Top

Fusion Gene PPI Analysis for SLC39A1-RAB13


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


Top

Related Drugs for SLC39A1-RAB13


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

Top

Related Diseases for SLC39A1-RAB13


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneSLC39A1C0033578Prostatic Neoplasms2CTD_human
HgeneSLC39A1C0376358Malignant neoplasm of prostate2CTD_human
HgeneSLC39A1C0035228Respiratory Hypersensitivity1CTD_human