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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: 30311

FusionGeneSummary for RALY_SLC24A3

check button Fusion gene summary
Fusion gene informationFusion gene name: RALY_SLC24A3
Fusion gene ID: 30311
HgeneTgene
Gene symbol

RALY

SLC24A3

Gene ID

22913

57419

Gene nameRALY heterogeneous nuclear ribonucleoproteinsolute carrier family 24 member 3
SynonymsHNRPCL2|P542NCKX3
Cytomap

20q11.22

20p11.23

Type of geneprotein-codingprotein-coding
DescriptionRNA-binding protein RalyRNA binding protein, autoantigenic (hnRNP-associated with lethal yellow homolog)RNA-binding protein (autoantigenic)RNA-binding protein (autoantigenic, hnRNP-associated with lethal yellow)autoantigen p542heterogeneous nuclear rsodium/potassium/calcium exchanger 3Na(+)/K(+)/Ca(2+)-exchange protein 3sodium calcium exchangersolute carrier family 24 (sodium/potassium/calcium exchanger), member 3
Modification date2018052320180523
UniProtAcc

Q9UKM9

Q9HC58

Ensembl transtripts involved in fusion geneENST00000375114, ENST00000246194, 
ENST00000493399, 
ENST00000328041, 
Fusion gene scores* DoF score17 X 10 X 11=18706 X 7 X 7=294
# samples 207
** MAII scorelog2(20/1870*10)=-3.22496636500027
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(7/294*10)=-2.0703893278914
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: RALY [Title/Abstract] AND SLC24A3 [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

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
TCGARVCESCTCGA-UC-A7PF-01ARALYchr20

32581937

+SLC24A3chr20

19560644

+
TCGALDCOADTCGA-A6-5660-01ARALYchr20

32666359

+SLC24A3chr20

19698172

+
* 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-3CDSENST00000375114ENST00000328041RALYchr20

32581937

+SLC24A3chr20

19560644

+
5UTR-3CDSENST00000246194ENST00000328041RALYchr20

32581937

+SLC24A3chr20

19560644

+
intron-3CDSENST00000493399ENST00000328041RALYchr20

32581937

+SLC24A3chr20

19560644

+
3UTR-3CDSENST00000375114ENST00000328041RALYchr20

32666359

+SLC24A3chr20

19698172

+
3UTR-3CDSENST00000246194ENST00000328041RALYchr20

32666359

+SLC24A3chr20

19698172

+
intron-3CDSENST00000493399ENST00000328041RALYchr20

32666359

+SLC24A3chr20

19698172

+

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FusionProtFeatures for RALY_SLC24A3


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

Q9UKM9

SLC24A3

Q9HC58

RNA-binding protein that acts as a transcriptionalcofactor for cholesterol biosynthetic genes in the liver. Bindsthe lipid-responsive non-coding RNA LeXis and is required forLeXis-mediated effect on cholesterogenesis (By similarity). May bea heterogeneous nuclear ribonucleoprotein (hnRNP)(PubMed:9376072). {ECO:0000250|UniProtKB:Q64012,ECO:0000269|PubMed:9376072}. Transports 1 Ca(2+) and 1 K(+) in exchange for 4 Na(+).{ECO:0000250}.

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 RALY_SLC24A3


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 RALY_SLC24A3


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
RALYSPG7, WDR62, USP45, TADA2A, YWHAQ, CAND1, PCBP1, RBMX, PABPC1, HNRNPM, HNRNPU, HNRNPH1, SYNCRIP, HNRNPR, SNRNP40, HNRNPC, RBM39, RNPS1, DHX9, HNRNPA0, MED16, HSP90AB2P, HNRNPD, MED1, ERLIN1, RPS20, FMNL1, FN1, VCAM1, HNRNPK, QKI, KHDRBS1, CELF1, SOX2, TARDBP, PARK2, RPA3, RPA2, RPA1, LIN28A, LIN28B, SHMT2, MOV10, NXF1, PHF6, CUL7, OBSL1, EZH2, SUZ12, EED, RNF2, BMI1, PSME3, RPL6, RALYL, HNRNPA1, ILF2, NTRK1, HNRNPUL2, PRPF8, RANGAP1, RANBP2, SPICE1, HIST1H3E, MATR3, TEAD2, FOXA3, FOXB1, FOXD4, FOXE1, FOXL1, FOXP3, FOXS1, SNW1, CDC5L, U2AF2, ELAVL2, STRBP, APOBEC3D, C11orf57, ZC3H18, STAU1, DGCR8, FBXW11, ZFC3H1, SNRNP70, SNIP1, RPL7, COX15, HSD17B10, FOXA1, TRIM25, BRCA1, LMNASLC24A3


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 RALY_SLC24A3


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 RALY_SLC24A3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneRALYC0236733Amphetamine-Related Disorders1CTD_human
TgeneSLC24A3C0010606Adenoid Cystic Carcinoma1CTD_human
TgeneSLC24A3C0036095Salivary Gland Neoplasms1CTD_human