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Fusion gene ID: 9066 |
FusionGeneSummary for CXCL1_AFP |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: CXCL1_AFP | Fusion gene ID: 9066 | Hgene | Tgene | Gene symbol | CXCL1 | AFP | Gene ID | 2919 | 7726 |
| Gene name | C-X-C motif chemokine ligand 1 | tripartite motif containing 26 | |
| Synonyms | FSP|GRO1|GROa|MGSA|MGSA-a|NAP-3|SCYB1 | AFP|RNF95|ZNF173 | |
| Cytomap | 4q13.3 | 6p22.1 | |
| Type of gene | protein-coding | protein-coding | |
| Description | growth-regulated alpha proteinC-X-C motif chemokine 1GRO-alpha(1-73)GRO1 oncogene (melanoma growth stimulating activity, alpha)GRO1 oncogene (melanoma growth-stimulating activity)MGSA alphachemokine (C-X-C motif) ligand 1 (melanoma growth stimulatin | tripartite motif-containing protein 26RING finger protein 95acid finger proteinwidely expressed acid zinc finger proteinzinc finger protein 173 | |
| Modification date | 20180523 | 20180519 | |
| UniProtAcc | P09341 | P02771 | |
| Ensembl transtripts involved in fusion gene | ENST00000509101, ENST00000395761, | ENST00000395792, ENST00000226359, ENST00000506820, | |
| Fusion gene scores | * DoF score | 1 X 1 X 1=1 | 1 X 1 X 1=1 |
| # samples | 1 | 1 | |
| ** MAII score | log2(1/1*10)=3.32192809488736 | log2(1/1*10)=3.32192809488736 | |
| Context | PubMed: CXCL1 [Title/Abstract] AND AFP [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 | AFP | GO:0045087 | innate immune response | 18248090 |
| Tgene | AFP | GO:0046597 | negative regulation of viral entry into host cell | 18248090 |
| Tgene | AFP | GO:0051091 | positive regulation of DNA binding transcription factor activity | 23077300 |
| Tgene | AFP | GO:1902187 | negative regulation of viral release from host cell | 18248090 |
| 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 |
| TCGA | LD | HNSC | TCGA-IQ-A61I-01A | CXCL1 | chr4 | 74735706 | + | AFP | chr4 | 74319482 | + |
| * 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 |
| 3UTR-3CDS | ENST00000509101 | ENST00000395792 | CXCL1 | chr4 | 74735706 | + | AFP | chr4 | 74319482 | + |
| 3UTR-3CDS | ENST00000509101 | ENST00000226359 | CXCL1 | chr4 | 74735706 | + | AFP | chr4 | 74319482 | + |
| 3UTR-3UTR | ENST00000509101 | ENST00000506820 | CXCL1 | chr4 | 74735706 | + | AFP | chr4 | 74319482 | + |
| In-frame | ENST00000395761 | ENST00000395792 | CXCL1 | chr4 | 74735706 | + | AFP | chr4 | 74319482 | + |
| In-frame | ENST00000395761 | ENST00000226359 | CXCL1 | chr4 | 74735706 | + | AFP | chr4 | 74319482 | + |
| 5CDS-3UTR | ENST00000395761 | ENST00000506820 | CXCL1 | chr4 | 74735706 | + | AFP | chr4 | 74319482 | + |
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FusionProtFeatures for CXCL1_AFP |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| CXCL1 | AFP |
| Has chemotactic activity for neutrophils. May play arole in inflammation and exerts its effects on endothelial cellsin an autocrine fashion. In vitro, the processed forms GRO-alpha(4-73), GRO-alpha(5-73) and GRO-alpha(6-73) show a 30-foldhigher chemotactic activity. {ECO:0000269|PubMed:10095777}. | Binds copper, nickel, and fatty acids as well as, andbilirubin less well than, serum albumin. Only a small percentage(less than 2%) of the human AFP shows estrogen-binding properties. |
| 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 CXCL1_AFP |
| 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. |
| >In-frame_CXCL1_ENST00000395761_chr4_74735706_+_AFP_ENST00000395792_chr4_74319482_+_162aa MARAALSAAPSNPRLLRVALLLLLLVAAGRRAAGASVATELRCQCLQTLQGIHPKNIQSVNVKSPGPHCAQTEVIATLKNGRKACLNPAS >In-frame_CXCL1_ENST00000395761_chr4_74735706_+_AFP_ENST00000226359_chr4_74319482_+_175aa MARAALSAAPSNPRLLRVALLLLLLVAAGRRAAGASVATELRCQCLQTLQGIHPKNIQSVNVKSPGPHCAQTEVIATLKNGRKACLNPAS |
| * Fusion transcript sequences (only coding sequence (CDS) region). |
| >In-frame_CXCL1_ENST00000395761_chr4_74735706_+_AFP_ENST00000395792_chr4_74319482_+_486nt ATGGCCCGCGCTGCTCTCTCCGCCGCCCCCAGCAATCCCCGGCTCCTGCGAGTGGCACTGCTGCTCCTGCTCCTGGTAGCCGCTGGCCGG CGCGCAGCAGGAGCGTCCGTGGCCACTGAACTGCGCTGCCAGTGCTTGCAGACCCTGCAGGGAATTCACCCCAAGAACATCCAAAGTGTG AACGTGAAGTCCCCCGGACCCCACTGCGCCCAAACCGAAGTCATAGCCACACTCAAGAATGGGCGGAAAGCTTGCCTCAATCCTGCATCC CCCATAGTTAAGAAAATCATCGAAAAGATGCTGAACAGGTTTCTCATTAACCTTGTGAAGCAAAAGCCACAAATAACAGAGGAACAACTT GAGGCTGTCATTGCAGATTTCTCAGGCCTGTTGGAGAAATGCTGCCAAGGCCAGGAACAGGAAGTCTGCTTTGCTGAAGAGGGACAAAAA >In-frame_CXCL1_ENST00000395761_chr4_74735706_+_AFP_ENST00000226359_chr4_74319482_+_525nt ATGGCCCGCGCTGCTCTCTCCGCCGCCCCCAGCAATCCCCGGCTCCTGCGAGTGGCACTGCTGCTCCTGCTCCTGGTAGCCGCTGGCCGG CGCGCAGCAGGAGCGTCCGTGGCCACTGAACTGCGCTGCCAGTGCTTGCAGACCCTGCAGGGAATTCACCCCAAGAACATCCAAAGTGTG AACGTGAAGTCCCCCGGACCCCACTGCGCCCAAACCGAAGTCATAGCCACACTCAAGAATGGGCGGAAAGCTTGCCTCAATCCTGCATCC CCCATAGTTAAGAAAATCATCGAAAAGATGCTGAACAGGTTTCTCATTAACCTTGTGAAGCAAAAGCCACAAATAACAGAGGAACAACTT GAGGCTGTCATTGCAGATTTCTCAGGCCTGTTGGAGAAATGCTGCCAAGGCCAGGAACAGGAAGTCTGCTTTGCTGAAGAGGGGAAGAGA |
| * Fusion transcript sequences (Full-length transcript). |
| >In-frame_CXCL1_ENST00000395761_chr4_74735706_+_AFP_ENST00000395792_chr4_74319482_+_1107nt GCCGCAGGCACCTCCTCGCCAGCTCTTCCGCTCCTCTCACAGCCGCCAGACCCGCCTGCTGAGCCCCATGGCCCGCGCTGCTCTCTCCGC CGCCCCCAGCAATCCCCGGCTCCTGCGAGTGGCACTGCTGCTCCTGCTCCTGGTAGCCGCTGGCCGGCGCGCAGCAGGAGCGTCCGTGGC CACTGAACTGCGCTGCCAGTGCTTGCAGACCCTGCAGGGAATTCACCCCAAGAACATCCAAAGTGTGAACGTGAAGTCCCCCGGACCCCA CTGCGCCCAAACCGAAGTCATAGCCACACTCAAGAATGGGCGGAAAGCTTGCCTCAATCCTGCATCCCCCATAGTTAAGAAAATCATCGA AAAGATGCTGAACAGGTTTCTCATTAACCTTGTGAAGCAAAAGCCACAAATAACAGAGGAACAACTTGAGGCTGTCATTGCAGATTTCTC AGGCCTGTTGGAGAAATGCTGCCAAGGCCAGGAACAGGAAGTCTGCTTTGCTGAAGAGGGACAAAAACTGATTTCAAAAACTCGTGCTGC TTTGGGAGTTTAAATTACTTCAGGGGAAGAGAAGACAAAACGAGTCTTTCATTCGGTGTGAACTTTTCTCTTTAATTTTAACTGATTTAA CACTTTTTGTGAATTAATGAAATGATAAAGACTTTTATGTGAGATTTCCTTATCACAGAAATAAAATATCTCCAAATGTTTCCTTTTCCA AGTTTGCTTATTTATGAAAAGTTATCGATAATTTCTTTAGTTTTGTATACCATTGTCTGAAGCAGATTCTGTTAAAATAGCATTAAGTGT TGGTTATTATAGGAGATTAAAGCTATCCAAGGATGGATTTACAGCACTAGATCACTTGGTGAACTGAAAAATGTTCCCAAGTTAAACACT ATTTGATGCTACCAGGGCATTTTGTTTATTAAATGACCATCACTGAAGTATTCTAACAGATAATCTGGAGATGAGAAAAGAAATTATTAT TCTTCTATGGGATCTAAGAAAATTTAACATCTACTTTTTTTCTCAATCTTGTTCAGTTCTCTATTCACAGACATTTTAAAACATAAGAAT >In-frame_CXCL1_ENST00000395761_chr4_74735706_+_AFP_ENST00000226359_chr4_74319482_+_621nt GCCGCAGGCACCTCCTCGCCAGCTCTTCCGCTCCTCTCACAGCCGCCAGACCCGCCTGCTGAGCCCCATGGCCCGCGCTGCTCTCTCCGC CGCCCCCAGCAATCCCCGGCTCCTGCGAGTGGCACTGCTGCTCCTGCTCCTGGTAGCCGCTGGCCGGCGCGCAGCAGGAGCGTCCGTGGC CACTGAACTGCGCTGCCAGTGCTTGCAGACCCTGCAGGGAATTCACCCCAAGAACATCCAAAGTGTGAACGTGAAGTCCCCCGGACCCCA CTGCGCCCAAACCGAAGTCATAGCCACACTCAAGAATGGGCGGAAAGCTTGCCTCAATCCTGCATCCCCCATAGTTAAGAAAATCATCGA AAAGATGCTGAACAGGTTTCTCATTAACCTTGTGAAGCAAAAGCCACAAATAACAGAGGAACAACTTGAGGCTGTCATTGCAGATTTCTC AGGCCTGTTGGAGAAATGCTGCCAAGGCCAGGAACAGGAAGTCTGCTTTGCTGAAGAGGGGAAGAGAAGACAAAACGAGTCTTTCATTCG |
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FusionGenePPI for CXCL1_AFP |
| 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 |
| CXCL1 | ACKR1, CXCL1, HIPK2, SRSF1, ESR1, HRAS, PTEN, XRCC3 | AFP | SGSM2, CCR5, STAMBP, XIAP, PSMB7, GNB1, EHD4, MED27, AP4S1, PHB2, PIDD1 |
| - 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 CXCL1_AFP |
| 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 |
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RelatedDiseases for CXCL1_AFP |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Hgene | CXCL1 | C0020517 | Hypersensitivity | 1 | CTD_human |
| Hgene | CXCL1 | C0023893 | Liver Cirrhosis, Experimental | 1 | CTD_human |
| Hgene | CXCL1 | C0024117 | Chronic Obstructive Airway Disease | 1 | CTD_human |
| Hgene | CXCL1 | C0032285 | Pneumonia | 1 | CTD_human |
| Hgene | CXCL1 | C0035126 | Reperfusion Injury | 1 | CTD_human |
| Hgene | CXCL1 | C0035228 | Respiratory Hypersensitivity | 1 | CTD_human |
| Hgene | CXCL1 | C0036982 | Shock, Hemorrhagic | 1 | CTD_human |
| Hgene | CXCL1 | C0085129 | Bronchial Hyperreactivity | 1 | CTD_human |
| Hgene | CXCL1 | C0241910 | Hepatitis, Autoimmune | 1 | CTD_human |
| Hgene | CXCL1 | C3495559 | Juvenile arthritis | 1 | CTD_human |
| Hgene | CXCL1 | C4277682 | Chemical and Drug Induced Liver Injury | 1 | CTD_human |
| Tgene | AFP | C2239176 | Liver carcinoma | 3 | CTD_human |
| Tgene | AFP | C0023893 | Liver Cirrhosis, Experimental | 1 | CTD_human |
| Tgene | AFP | C0023895 | Liver diseases | 1 | CTD_human |
| Tgene | AFP | C0023904 | Liver Neoplasms, Experimental | 1 | CTD_human |
| Tgene | AFP | C0024668 | Mammary Neoplasms, Experimental | 1 | CTD_human |
| Tgene | AFP | C0038356 | Stomach Neoplasms | 1 | CTD_human |
| Tgene | AFP | C1458155 | Mammary Neoplasms | 1 | CTD_human |
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