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Fusion gene ID: 19742 |
FusionGeneSummary for LIMS1_CCDC138 |
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Fusion gene information | Fusion gene name: LIMS1_CCDC138 | Fusion gene ID: 19742 | Hgene | Tgene | Gene symbol | LIMS1 | CCDC138 | Gene ID | 3987 | 165055 |
Gene name | LIM zinc finger domain containing 1 | coiled-coil domain containing 138 | |
Synonyms | PINCH|PINCH-1|PINCH1 | - | |
Cytomap | 2q12.3 | 2q13 | |
Type of gene | protein-coding | protein-coding | |
Description | LIM and senescent cell antigen-like-containing domain protein 1LIM and senescent cell antigen-like domains 1LIM-type zinc finger domains 1particularly interesting new Cys-His protein 1renal carcinoma antigen NY-REN-48senescent cell antigen | coiled-coil domain-containing protein 138 | |
Modification date | 20180522 | 20180519 | |
UniProtAcc | P48059 | Q96M89 | |
Ensembl transtripts involved in fusion gene | ENST00000544547, ENST00000332345, ENST00000393310, ENST00000410093, ENST00000409441, ENST00000338045, ENST00000462817, ENST00000542845, ENST00000393314, | ENST00000412964, ENST00000295124, ENST00000470608, | |
Fusion gene scores | * DoF score | 4 X 2 X 3=24 | 1 X 1 X 1=1 |
# samples | 4 | 1 | |
** MAII score | log2(4/24*10)=0.736965594166206 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | log2(1/1*10)=3.32192809488736 | |
Context | PubMed: LIMS1 [Title/Abstract] AND CCDC138 [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) |
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Partner | Gene | GO ID | GO term | PubMed ID |
Hgene | LIMS1 | GO:0045892 | negative regulation of transcription, DNA-templated | 21390327 |
![]() (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 | BLCA | TCGA-K4-A5RJ-01A | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
* 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 | ENST00000544547 | ENST00000412964 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
Frame-shift | ENST00000544547 | ENST00000295124 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
5CDS-intron | ENST00000544547 | ENST00000470608 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000332345 | ENST00000412964 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000332345 | ENST00000295124 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-intron | ENST00000332345 | ENST00000470608 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000393310 | ENST00000412964 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000393310 | ENST00000295124 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-intron | ENST00000393310 | ENST00000470608 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000410093 | ENST00000412964 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000410093 | ENST00000295124 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-intron | ENST00000410093 | ENST00000470608 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000409441 | ENST00000412964 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000409441 | ENST00000295124 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-intron | ENST00000409441 | ENST00000470608 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000338045 | ENST00000412964 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000338045 | ENST00000295124 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-intron | ENST00000338045 | ENST00000470608 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000462817 | ENST00000412964 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000462817 | ENST00000295124 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-intron | ENST00000462817 | ENST00000470608 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000542845 | ENST00000412964 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000542845 | ENST00000295124 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-intron | ENST00000542845 | ENST00000470608 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000393314 | ENST00000412964 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-3CDS | ENST00000393314 | ENST00000295124 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
intron-intron | ENST00000393314 | ENST00000470608 | LIMS1 | chr2 | 109151050 | + | CCDC138 | chr2 | 109421345 | + |
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FusionProtFeatures for LIMS1_CCDC138 |
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Hgene | Tgene |
LIMS1 | CCDC138 |
Adapter protein in a cytoplasmic complex linking beta-integrins to the actin cytoskeleton, bridges the complex to cellsurface receptor tyrosine kinases and growth factor receptors.Involved in the regulation of cell survival, cell proliferationand cell differentiation. |
![]() * 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 LIMS1_CCDC138 |
![]() (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 LIMS1_CCDC138 |
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Hgene | Hgene's interactors | Tgene | Tgene's interactors |
LIMS1 | ILK, RBBP8, LPXN, EHMT2, ACP6, NCK2, STK11, HNRNPU, MBIP, MAPT, STUB1, RSU1, TYMS, MYO18A, PARVA, PARVB, CMAS, SRRT, RABGAP1, REPS1, MYH7, PXN, TRIP6, BMP2K, PARVG, KIF22, XRCC5, TMEM132A, SGOL1, ASPM, SNW1, CDC5L, MYH4 | CCDC138 | SAV1, STX12, DCTN2, BTRC, CEP63, KIAA0753, CCDC14, MED4, CEP290, CEP162, PCM1, SSX2IP, AHI1, OFD1, CC2D2A, CEP170, CEP104, CEP120, CEP152, SPICE1, CEP128, CEP135, CEP89, CNTRL, NINL, NIN, ODF2, RPGRIP1L, SCLT1, POC5, LCA5, SASS6, CENPJ, FGFR1OP, PTPN22, TPTE2, PAK7 |
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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 LIMS1_CCDC138 |
![]() (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 LIMS1_CCDC138 |
![]() (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |