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Fusion gene ID: 19481 |
FusionGeneSummary for LARP4_RYR3 |
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Fusion gene information | Fusion gene name: LARP4_RYR3 | Fusion gene ID: 19481 | Hgene | Tgene | Gene symbol | LARP4 | RYR3 | Gene ID | 113251 | 6263 |
Gene name | La ribonucleoprotein domain family member 4 | ryanodine receptor 3 | |
Synonyms | PP13296 | RYR-3 | |
Cytomap | 12q13.12 | 15q13.3-q14 | |
Type of gene | protein-coding | protein-coding | |
Description | la-related protein 4c-Mpl binding protein | ryanodine receptor 3brain ryanodine receptor-calcium release channelbrain-type ryanodine receptortype 3 ryanodine receptor | |
Modification date | 20180527 | 20180523 | |
UniProtAcc | Q71RC2 | Q15413 | |
Ensembl transtripts involved in fusion gene | ENST00000293618, ENST00000429001, ENST00000398473, ENST00000518444, ENST00000347328, ENST00000522085, ENST00000518561, | ENST00000415757, ENST00000389232, ENST00000559917, | |
Fusion gene scores | * DoF score | 8 X 4 X 6=192 | 3 X 3 X 3=27 |
# samples | 8 | 3 | |
** MAII score | log2(8/192*10)=-1.26303440583379 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(3/27*10)=0.15200309344505 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | |
Context | PubMed: LARP4 [Title/Abstract] AND RYR3 [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 |
![]() (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 | RV | BRCA | TCGA-BH-A5IZ-01A | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
* 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 | ENST00000293618 | ENST00000415757 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
Frame-shift | ENST00000293618 | ENST00000389232 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
5CDS-intron | ENST00000293618 | ENST00000559917 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
Frame-shift | ENST00000429001 | ENST00000415757 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
Frame-shift | ENST00000429001 | ENST00000389232 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
5CDS-intron | ENST00000429001 | ENST00000559917 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
Frame-shift | ENST00000398473 | ENST00000415757 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
Frame-shift | ENST00000398473 | ENST00000389232 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
5CDS-intron | ENST00000398473 | ENST00000559917 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
Frame-shift | ENST00000518444 | ENST00000415757 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
Frame-shift | ENST00000518444 | ENST00000389232 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
5CDS-intron | ENST00000518444 | ENST00000559917 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
Frame-shift | ENST00000347328 | ENST00000415757 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
Frame-shift | ENST00000347328 | ENST00000389232 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
5CDS-intron | ENST00000347328 | ENST00000559917 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
Frame-shift | ENST00000522085 | ENST00000415757 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
Frame-shift | ENST00000522085 | ENST00000389232 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
5CDS-intron | ENST00000522085 | ENST00000559917 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
5UTR-3CDS | ENST00000518561 | ENST00000415757 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
5UTR-3CDS | ENST00000518561 | ENST00000389232 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
5UTR-intron | ENST00000518561 | ENST00000559917 | LARP4 | chr12 | 50794811 | + | RYR3 | chr15 | 34028436 | + |
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FusionProtFeatures for LARP4_RYR3 |
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Hgene | Tgene |
LARP4 | RYR3 |
RNA binding protein that binds to the poly-A tract ofmRNA molecules (PubMed:21098120). Associates with the 40Sribosomal subunit and with polysomes (PubMed:21098120). Plays arole in the regulation of mRNA translation (PubMed:21098120).Plays a role in the regulation of cell morphology and cytoskeletalorganization (PubMed:21834987, PubMed:27615744).{ECO:0000269|PubMed:21098120, ECO:0000269|PubMed:21834987,ECO:0000269|PubMed:27615744}. | Calcium channel that mediates the release of Ca(2+) fromthe sarcoplasmic reticulum into the cytoplasm in muscle andthereby plays a role in triggering muscle contraction. Mayregulate Ca(2+) release by other calcium channels. Calcium channelthat mediates Ca(2+)-induced Ca(2+) release from the endoplasmicreticulum in non-muscle cells. Contributes to cellular calcium ionhomeostasis (By similarity). Plays a role in cellular calciumsignaling. {ECO:0000250, ECO:0000269|PubMed:12354756}. |
![]() * 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 LARP4_RYR3 |
![]() (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 LARP4_RYR3 |
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Hgene | Hgene's interactors | Tgene | Tgene's interactors |
LARP4 | ELAVL1, SIRT7, CUL3, COPS6, APP, MPG, TARDBP, LIN28A, LIN28B, CRX, BHLHE40, EGFR, GNB2L1, NTRK1, MYO1C, NPM1, RPL10, AKAP1, RNF126, G3BP1 | RYR3 | RYR2, FKBP1A, CUL1, CFTR, HNF1A, BMI1, FKBP1B |
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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 LARP4_RYR3 |
![]() (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 LARP4_RYR3 |
![]() (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
Hgene | LARP4 | C0032460 | Polycystic Ovary Syndrome | 1 | CTD_human |