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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 32027

FusionGeneSummary for RPRD1A_SLC39A6

check button Fusion gene summary
Fusion gene informationFusion gene name: RPRD1A_SLC39A6
Fusion gene ID: 32027
HgeneTgene
Gene symbol

RPRD1A

SLC39A6

Gene ID

55197

25800

Gene nameregulation of nuclear pre-mRNA domain containing 1Asolute carrier family 39 member 6
SynonymsHsT3101|P15RSLIV-1|ZIP6
Cytomap

18q12.2

18q12.2

Type of geneprotein-codingprotein-coding
Descriptionregulation of nuclear pre-mRNA domain-containing protein 1ACDKN2B-related proteinCyclin-dependent kinase inhibitor 2B-related protein (p15INK4B-related protein)cyclin-dependent kinase 2B-inhibitor-related proteinp15INK4B-related proteinzinc transporter ZIP6LIV-1 protein, estrogen regulatedZIP-6estrogen-regulated protein LIV-1solute carrier family 39 (metal ion transporter), member 6solute carrier family 39 (zinc transporter), member 6zrt- and Irt-like protein 6
Modification date2018051920180523
UniProtAcc

Q96P16

Q13433

Ensembl transtripts involved in fusion geneENST00000590898, ENST00000399022, 
ENST00000337059, ENST00000357384, 
ENST00000588737, ENST00000319040, 
ENST00000588459, 
ENST00000269187, 
ENST00000590986, ENST00000440549, 
Fusion gene scores* DoF score6 X 8 X 3=1443 X 3 X 2=18
# samples 94
** MAII scorelog2(9/144*10)=-0.678071905112638
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(4/18*10)=1.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: RPRD1A [Title/Abstract] AND SLC39A6 [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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
TgeneSLC39A6

GO:0006882

cellular zinc ion homeostasis

15642354

TgeneSLC39A6

GO:0071578

zinc ion import across plasma membrane

15642354


check button 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 typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGALDBRCATCGA-A8-A07G-01ARPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
TCGALDBRCATCGA-E9-A1NA-01ARPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

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
5UTR-5UTRENST00000590898ENST00000269187RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5UTR-5UTRENST00000590898ENST00000590986RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5UTR-intronENST00000590898ENST00000440549RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5CDS-5UTRENST00000399022ENST00000269187RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5CDS-5UTRENST00000399022ENST00000590986RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5CDS-intronENST00000399022ENST00000440549RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
intron-5UTRENST00000337059ENST00000269187RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
intron-5UTRENST00000337059ENST00000590986RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
intron-intronENST00000337059ENST00000440549RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5CDS-5UTRENST00000357384ENST00000269187RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5CDS-5UTRENST00000357384ENST00000590986RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5CDS-intronENST00000357384ENST00000440549RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5UTR-5UTRENST00000588737ENST00000269187RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5UTR-5UTRENST00000588737ENST00000590986RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5UTR-intronENST00000588737ENST00000440549RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5CDS-5UTRENST00000319040ENST00000269187RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5CDS-5UTRENST00000319040ENST00000590986RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
5CDS-intronENST00000319040ENST00000440549RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
intron-5UTRENST00000588459ENST00000269187RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
intron-5UTRENST00000588459ENST00000590986RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
intron-intronENST00000588459ENST00000440549RPRD1Achr18

33647217

-SLC39A6chr18

33706979

-
Frame-shitENST00000590898ENST00000269187RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
Frame-shitENST00000590898ENST00000590986RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
Frame-shitENST00000590898ENST00000440549RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
In-frameENST00000399022ENST00000269187RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
In-frameENST00000399022ENST00000590986RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
In-frameENST00000399022ENST00000440549RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
Frame-shitENST00000337059ENST00000269187RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
Frame-shitENST00000337059ENST00000590986RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
Frame-shitENST00000337059ENST00000440549RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
Frame-shitENST00000357384ENST00000269187RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
Frame-shitENST00000357384ENST00000590986RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
Frame-shitENST00000357384ENST00000440549RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
In-frameENST00000588737ENST00000269187RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
In-frameENST00000588737ENST00000590986RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
In-frameENST00000588737ENST00000440549RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
In-frameENST00000319040ENST00000269187RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
In-frameENST00000319040ENST00000590986RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
In-frameENST00000319040ENST00000440549RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
intron-3CDSENST00000588459ENST00000269187RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
intron-3CDSENST00000588459ENST00000590986RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-
intron-3CDSENST00000588459ENST00000440549RPRD1Achr18

33606863

-SLC39A6chr18

33702233

-

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FusionProtFeatures for RPRD1A_SLC39A6


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
RPRD1A

Q96P16

SLC39A6

Q13433

Interacts with phosphorylated C-terminal heptapeptiderepeat domain (CTD) of the largest RNA polymerase II subunitPOLR2A, and participates in dephosphorylation of the CTD by RPAP2.May act as a negative regulator of cyclin-D1 (CCND1) and cyclin-E(CCNE1) in the cell cycle. {ECO:0000269|PubMed:22231121,ECO:0000269|PubMed:24399136, ECO:0000269|PubMed:24997600}. May act as a zinc-influx transporter.{ECO:0000269|PubMed:12839489}.

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

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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FusionGeneSequence for RPRD1A_SLC39A6


check button 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 RPRD1A_SLC39A6


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
RPRD1AELAVL1, BRCA1, BCAR3, YWHAZ, RIOK2, KDM1A, ANKMY2, HSF1, NPLOC4, PLIN3, ACTR2, FNTB, MCMBP, PARP6, SRP9, STAT5B, SURF2, TTLL12, WWOX, TP53, KPNA3, MOV10, NXF1, EGFR, GPN3, RPRD1B, POLR2M, CYP1A1, POLR2G, DPH2, DXO, MITD1, CCDC22, SH3GLB1, VPS37B, EWSR1, POU5F1, LMO2, POLR2D, ASB6, SNRNP27, GTF2E2, MRPS11, FGB, USP47, PITHD1, MAX, ARNTL, HAUS6, PHLDB3, PTRF, PHF21A, OIP5, CCDC93, CCDC132, HMG20A, RCOR1, GRIPAP1, DZIP3, VPS53, PSMD9, CLOCK, RABGAP1L, GOLGA5, TUFT1, YEATS4, CCHCR1, TFPT, NCKAP5L, PKN3, GIT2, NUF2, THAP11, RABGEF1, JUN, VPS51SLC39A6KDM5B, SPP1, SPINT2, TNFRSF9, COMTD1, GNAI2, GABRE, WBP1, GLRA2, SCARA3, LYPD6, TMEM17, TMEM216, CTDSPL, SLC39A5, MTNR1B, BRCA1


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


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RelatedDrugs for RPRD1A_SLC39A6


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for RPRD1A_SLC39A6


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneSLC39A6C0023893Liver Cirrhosis, Experimental1CTD_human
TgeneSLC39A6C0027627Neoplasm Metastasis1CTD_human
TgeneSLC39A6C0279626Squamous cell carcinoma of esophagus1CTD_human
TgeneSLC39A6C1458155Mammary Neoplasms1CTD_human