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Fusion gene ID: 16402 |
FusionGeneSummary for HLTF_TM4SF1 |
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Fusion gene information | Fusion gene name: HLTF_TM4SF1 | Fusion gene ID: 16402 | Hgene | Tgene | Gene symbol | HLTF | TM4SF1 | Gene ID | 6596 | 4071 |
Gene name | helicase like transcription factor | transmembrane 4 L six family member 1 | |
Synonyms | HIP116|HIP116A|HLTF1|RNF80|SMARCA3|SNF2L3|ZBU1 | H-L6|L6|M3S1|TAAL6 | |
Cytomap | 3q24 | 3q25.1 | |
Type of gene | protein-coding | protein-coding | |
Description | helicase-like transcription factorDNA-binding protein/plasminogen activator inhibitor-1 regulatorRING finger protein 80RING-type E3 ubiquitin transferase HLTFSNF2-like 3SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfa | transmembrane 4 L6 family member 1membrane component, chromosome 3, surface marker 1transmembrane 4 superfamily member 1tumor-associated antigen L6 | |
Modification date | 20180519 | 20180523 | |
UniProtAcc | Q14527 | P30408 | |
Ensembl transtripts involved in fusion gene | ENST00000465259, ENST00000310053, ENST00000392912, ENST00000494055, ENST00000481663, | ENST00000305366, ENST00000472441, | |
Fusion gene scores | * DoF score | 2 X 2 X 2=8 | 7 X 5 X 4=140 |
# samples | 2 | 7 | |
** MAII score | log2(2/8*10)=1.32192809488736 | log2(7/140*10)=-1 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
Context | PubMed: HLTF [Title/Abstract] AND TM4SF1 [Title/Abstract] AND fusion [Title/Abstract] | ||
Functional or gene categories assigned by FusionGDB annotation | Tumor suppressor gene involved fusion gene, retained protein feature but frameshift. DDR (DNA damage repair) gene involved fusion gene, in-frame but not retained their domain. DDR (DNA damage repair) gene involved fusion gene, retained protein feature but frameshift. |
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
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Partner | Gene | GO ID | GO term | PubMed ID |
![]() (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 |
TCGA | LD | STAD | TCGA-BR-8060-01A | HLTF | chr3 | 148759953 | - | TM4SF1 | chr3 | 149093556 | - |
* LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
![]() * 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 |
Frame-shift | ENST00000465259 | ENST00000305366 | HLTF | chr3 | 148759953 | - | TM4SF1 | chr3 | 149093556 | - |
5CDS-intron | ENST00000465259 | ENST00000472441 | HLTF | chr3 | 148759953 | - | TM4SF1 | chr3 | 149093556 | - |
Frame-shift | ENST00000310053 | ENST00000305366 | HLTF | chr3 | 148759953 | - | TM4SF1 | chr3 | 149093556 | - |
5CDS-intron | ENST00000310053 | ENST00000472441 | HLTF | chr3 | 148759953 | - | TM4SF1 | chr3 | 149093556 | - |
Frame-shift | ENST00000392912 | ENST00000305366 | HLTF | chr3 | 148759953 | - | TM4SF1 | chr3 | 149093556 | - |
5CDS-intron | ENST00000392912 | ENST00000472441 | HLTF | chr3 | 148759953 | - | TM4SF1 | chr3 | 149093556 | - |
Frame-shift | ENST00000494055 | ENST00000305366 | HLTF | chr3 | 148759953 | - | TM4SF1 | chr3 | 149093556 | - |
5CDS-intron | ENST00000494055 | ENST00000472441 | HLTF | chr3 | 148759953 | - | TM4SF1 | chr3 | 149093556 | - |
intron-3CDS | ENST00000481663 | ENST00000305366 | HLTF | chr3 | 148759953 | - | TM4SF1 | chr3 | 149093556 | - |
intron-intron | ENST00000481663 | ENST00000472441 | HLTF | chr3 | 148759953 | - | TM4SF1 | chr3 | 149093556 | - |
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FusionProtFeatures for HLTF_TM4SF1 |
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Hgene | Tgene |
HLTF | TM4SF1 |
Has both helicase and E3 ubiquitin ligase activities.Possesses intrinsic ATP-dependent nucleosome-remodeling activity;This activity may be required for transcriptional activation orrepression of specific target promoters (By similarity). These mayinclude the SERPINE1 and HIV-1 promoters and the SV40 enhancer, towhich this protein can bind directly. Plays a role in error-freepostreplication repair (PRR) of damaged DNA and maintains genomicstability through acting as a ubiquitin ligase for 'Lys-63'-linkedpolyubiquitination of chromatin-bound PCNA. {ECO:0000250,ECO:0000269|PubMed:10391891, ECO:0000269|PubMed:18316726,ECO:0000269|PubMed:18719106, ECO:0000269|PubMed:7876228,ECO:0000269|PubMed:8672239, ECO:0000269|PubMed:9126292}. |
![]() * 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 |
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FusionGeneSequence for HLTF_TM4SF1 |
![]() (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 HLTF_TM4SF1 |
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Hgene | Hgene's interactors | Tgene | Tgene's interactors |
HLTF | PCNA, UBE2N, UBE2V2, RAD18, USP7, RPAP1, UBE2Z, EWSR1, CHFR, SHPRH, RNF146, ELAVL1, SPRTN, SP1, SP3, NOTCH1, DTL, BRCA1, CDK9, HSPA8, SULT1C2, WBP4, RPA3, RPA2, RPA1, UBC, UBE2A, HLTF, DLD, RNF166, APLF, HIST1H2BA, S100A10, FBXW11, NTRK1, PDK3, SMC1A, EMC2, AP4S1, SYNPO, CERK, TCEAL4, SNW1, CDC5L, NANOG, POU5F1, NFATC1, NFATC2, PMPCA, CHD1L, FEN1, VPRBP | TM4SF1 | DNAJA1, HSPA8, DDR1, ELAVL1, TRIM25 |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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RelatedDrugs for HLTF_TM4SF1 |
![]() (DrugBank Version 5.1.0 2018-04-02) |
Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for HLTF_TM4SF1 |
![]() (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
Hgene | HLTF | C0022665 | Kidney Neoplasm | 1 | CTD_human |