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Fusion gene ID: 31650 |
FusionGeneSummary for RNU5F-1_SLC1A2 |
Fusion gene summary |
Fusion gene information | Fusion gene name: RNU5F-1_SLC1A2 | Fusion gene ID: 31650 | Hgene | Tgene | Gene symbol | RNU5F-1 | SLC1A2 | Gene ID | 26828 | 6506 |
Gene name | RNA, U5F small nuclear 1 | solute carrier family 1 member 2 | |
Synonyms | RNU5F|U5F | EAAT2|EIEE41|GLT-1|HBGT | |
Cytomap | 1p34.1 | 11p13 | |
Type of gene | snRNA | protein-coding | |
Description | - | excitatory amino acid transporter 2excitotoxic amino acid transporter 2glutamate/aspartate transporter IIsodium-dependent glutamate/aspartate transporter 2solute carrier family 1 (glial high affinity glutamate transporter), member 2 | |
Modification date | 20180519 | 20180519 | |
UniProtAcc | P43004 | ||
Ensembl transtripts involved in fusion gene | ENST00000362507, | ENST00000278379, ENST00000395750, ENST00000395753, ENST00000606205, ENST00000479543, | |
Fusion gene scores | * DoF score | 4 X 5 X 1=20 | 9 X 8 X 5=360 |
# samples | 5 | 11 | |
** MAII score | log2(5/20*10)=1.32192809488736 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | log2(11/360*10)=-1.71049338280502 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
Context | PubMed: RNU5F-1 [Title/Abstract] AND SLC1A2 [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) |
Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Partner | Gene | GO ID | GO term | PubMed ID |
Tgene | SLC1A2 | GO:0015813 | L-glutamate transmembrane transport | 26690923 |
Tgene | SLC1A2 | GO:0070207 | protein homotrimerization | 15265858|15483603 |
Tgene | SLC1A2 | GO:0070779 | D-aspartate import across plasma membrane | 7521911 |
Tgene | SLC1A2 | GO:0098712 | L-glutamate import across plasma membrane | 7521911|15265858|26690923 |
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 type | Source | Cancer type | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
ChiTaRS3.1 | AW902064 | RNU5F-1 | chr1 | 220253908 | + | SLC1A2 | chr11 | 35273404 | - |
* LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
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. |
ORF | Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
intron-3UTR | ENST00000362507 | ENST00000278379 | RNU5F-1 | chr1 | 220253908 | + | SLC1A2 | chr11 | 35273404 | - |
intron-3UTR | ENST00000362507 | ENST00000395750 | RNU5F-1 | chr1 | 220253908 | + | SLC1A2 | chr11 | 35273404 | - |
intron-3UTR | ENST00000362507 | ENST00000395753 | RNU5F-1 | chr1 | 220253908 | + | SLC1A2 | chr11 | 35273404 | - |
intron-intron | ENST00000362507 | ENST00000606205 | RNU5F-1 | chr1 | 220253908 | + | SLC1A2 | chr11 | 35273404 | - |
intron-intron | ENST00000362507 | ENST00000479543 | RNU5F-1 | chr1 | 220253908 | + | SLC1A2 | chr11 | 35273404 | - |
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FusionProtFeatures for RNU5F-1_SLC1A2 |
Main function of each fusion partner protein. (from UniProt) |
Hgene | Tgene |
RNU5F-1 | SLC1A2 |
Lectin that binds to various sugars: galactose > mannose= fucose > N-acetylglucosamine > N-acetylgalactosamine(PubMed:10224141). Acts as a chemoattractant, probably involved inthe regulation of cell migration (PubMed:28301481).{ECO:0000269|PubMed:10224141, ECO:0000269|PubMed:28301481}. | Sodium-dependent, high-affinity amino acid transporterthat mediates the uptake of L-glutamate and also L-aspartate andD-aspartate (PubMed:7521911, PubMed:14506254, PubMed:15265858,PubMed:26690923). Functions as a symporter that transports oneamino acid molecule together with two or three Na(+) ions and oneproton, in parallel with the counter-transport of one K(+) ion(PubMed:14506254). Mediates Cl(-) flux that is not coupled toamino acid transport; this avoids the accumulation of negativecharges due to aspartate and Na(+) symport (PubMed:14506254).Essential for the rapid removal of released glutamate from thesynaptic cleft, and for terminating the postsynaptic action ofglutamate (By similarity). {ECO:0000250|UniProtKB:P43006,ECO:0000269|PubMed:15265858, ECO:0000269|PubMed:26690923,ECO:0000269|PubMed:7521911}. |
Retention 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 . * 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 RNU5F-1_SLC1A2 |
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 RNU5F-1_SLC1A2 |
Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in . |
Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160) |
Hgene | Hgene's interactors | Tgene | Tgene's interactors |
- Retained PPIs in in-frame fusion. |
Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
- Lost PPIs in in-frame fusion. |
Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
- Retained PPIs, but lost function due to frame-shift fusion. |
Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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RelatedDrugs for RNU5F-1_SLC1A2 |
Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.0 2018-04-02) |
Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Tgene | SLC1A2 | P43004 | DB00142 | Glutamic Acid | Excitatory amino acid transporter 2 | small molecule | approved|nutraceutical |
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RelatedDiseases for RNU5F-1_SLC1A2 |
Diseases associated with fusion partners. (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
Tgene | SLC1A2 | C0005586 | Bipolar Disorder | 4 | PSYGENET |
Tgene | SLC1A2 | C0036341 | Schizophrenia | 4 | PSYGENET |
Tgene | SLC1A2 | C0001973 | Alcoholic Intoxication, Chronic | 3 | PSYGENET |
Tgene | SLC1A2 | C0011570 | Mental Depression | 3 | PSYGENET |
Tgene | SLC1A2 | C0011581 | Depressive disorder | 3 | PSYGENET |
Tgene | SLC1A2 | C0002736 | Amyotrophic Lateral Sclerosis | 1 | CTD_human |
Tgene | SLC1A2 | C0014544 | Epilepsy | 1 | CTD_human |
Tgene | SLC1A2 | C0027746 | Nerve Degeneration | 1 | CTD_human |
Tgene | SLC1A2 | C0038356 | Stomach Neoplasms | 1 | CTD_human |
Tgene | SLC1A2 | C0236736 | Cocaine-Related Disorders | 1 | CTD_human |
Tgene | SLC1A2 | C0525045 | Mood Disorders | 1 | PSYGENET |