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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: 19539

FusionGeneSummary for LCP1_SLC4A10

check button Fusion gene summary
Fusion gene informationFusion gene name: LCP1_SLC4A10
Fusion gene ID: 19539
HgeneTgene
Gene symbol

LCP1

SLC4A10

Gene ID

9878

57282

Gene nameTOX high mobility group box family member 4solute carrier family 4 member 10
SynonymsC14orf92|KIAA0737|LCP1|MIG7NBCn2|NCBE
Cytomap

14q11.2

2q24.2

Type of geneprotein-codingprotein-coding
DescriptionTOX high mobility group box family member 4epidermal Langerhans cell protein LCP1migration-inducing protein 7sodium-driven chloride bicarbonate exchangersolute carrier family 4, sodium bicarbonate cotransporter-like, member 10solute carrier family 4, sodium bicarbonate transporter, member 10
Modification date2018052220180523
UniProtAcc

P13796

Q6U841

Ensembl transtripts involved in fusion geneENST00000398576, ENST00000323076, 
ENST00000435666, ENST00000460190, 
ENST00000375514, ENST00000415876, 
ENST00000535165, ENST00000493021, 
ENST00000272716, ENST00000446997, 
ENST00000421911, 
Fusion gene scores* DoF score3 X 3 X 1=94 X 4 X 3=48
# samples 44
** MAII scorelog2(4/9*10)=2.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: LCP1 [Title/Abstract] AND SLC4A10 [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
ChiTaRS3.1BG392690LCP1chr13

46717436

-SLC4A10chr2

162661287

+
* 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
intron-intronENST00000398576ENST00000375514LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000398576ENST00000415876LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000398576ENST00000535165LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000398576ENST00000493021LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000398576ENST00000272716LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000398576ENST00000446997LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000398576ENST00000421911LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000323076ENST00000375514LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000323076ENST00000415876LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000323076ENST00000535165LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000323076ENST00000493021LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000323076ENST00000272716LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000323076ENST00000446997LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000323076ENST00000421911LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000435666ENST00000375514LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000435666ENST00000415876LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000435666ENST00000535165LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000435666ENST00000493021LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000435666ENST00000272716LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000435666ENST00000446997LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000435666ENST00000421911LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000460190ENST00000375514LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000460190ENST00000415876LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000460190ENST00000535165LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000460190ENST00000493021LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000460190ENST00000272716LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000460190ENST00000446997LCP1chr13

46717436

-SLC4A10chr2

162661287

+
intron-intronENST00000460190ENST00000421911LCP1chr13

46717436

-SLC4A10chr2

162661287

+

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FusionProtFeatures for LCP1_SLC4A10


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LCP1

P13796

SLC4A10

Q6U841

Actin-binding protein (PubMed:16636079, PubMed:17294403,PubMed:28493397). Plays a role in the activation of T-cells inresponse to costimulation through TCR/CD3 and CD2 or CD28(PubMed:17294403). Modulates the cell surface expression ofIL2RA/CD25 and CD69 (PubMed:17294403).{ECO:0000269|PubMed:16636079, ECO:0000269|PubMed:17294403,ECO:0000269|PubMed:28493397}.

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 LCP1_SLC4A10


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 LCP1_SLC4A10


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


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RelatedDrugs for LCP1_SLC4A10


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 LCP1_SLC4A10


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneLCP1C0023893Liver Cirrhosis, Experimental1CTD_human
HgeneLCP1C0040336Tobacco Use Disorder1CTD_human
TgeneSLC4A10C0009241Cognition Disorders1CTD_human
TgeneSLC4A10C0014544Epilepsy1CTD_human
TgeneSLC4A10C0085541Epilepsy, Frontal Lobe1CTD_human
TgeneSLC4A10C0151740Intracranial Hypertension1CTD_human
TgeneSLC4A10C3714756Intellectual Disability1CTD_human