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Fusion gene ID: 20108 |
FusionGeneSummary for LRP12_CCL28 |
Fusion gene summary |
Fusion gene information | Fusion gene name: LRP12_CCL28 | Fusion gene ID: 20108 | Hgene | Tgene | Gene symbol | LRP12 | CCL28 | Gene ID | 29967 | 56477 |
Gene name | LDL receptor related protein 12 | C-C motif chemokine ligand 28 | |
Synonyms | ST7 | CCK1|MEC|SCYA28 | |
Cytomap | 8q22.3 | 5p12 | |
Type of gene | protein-coding | protein-coding | |
Description | low-density lipoprotein receptor-related protein 12suppressor of tumorigenicity 7 protein | C-C motif chemokine 28CC chemokine CCL28chemokine (C-C motif) ligand 28 splice variant chimucosae-associated epithelial chemokinesmall inducible cytokine A28small inducible cytokine subfamily A (Cys-Cys), member 28 | |
Modification date | 20180519 | 20180519 | |
UniProtAcc | Q9Y561 | Q9NRJ3 | |
Ensembl transtripts involved in fusion gene | ENST00000424843, ENST00000276654, ENST00000518375, | ENST00000361115, ENST00000513525, ENST00000537013, | |
Fusion gene scores | * DoF score | 8 X 3 X 4=96 | 2 X 1 X 2=4 |
# samples | 10 | 2 | |
** MAII score | log2(10/96*10)=0.0588936890535686 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | log2(2/4*10)=2.32192809488736 | |
Context | PubMed: LRP12 [Title/Abstract] AND CCL28 [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 |
Hgene | LRP12 | GO:0001764 | neuron migration | 26639854 |
Hgene | LRP12 | GO:0031175 | neuron projection development | 26639854 |
Tgene | CCL28 | GO:0001954 | positive regulation of cell-matrix adhesion | 18308860 |
Tgene | CCL28 | GO:0060326 | cell chemotaxis | 18308860 |
Tgene | CCL28 | GO:1903237 | negative regulation of leukocyte tethering or rolling | 18308860 |
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 | RV | KICH | TCGA-KL-8341-01A | LRP12 | chr8 | 105544135 | - | CCL28 | chr5 | 43388578 | - |
* 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-3CDS | ENST00000424843 | ENST00000361115 | LRP12 | chr8 | 105544135 | - | CCL28 | chr5 | 43388578 | - |
intron-5UTR | ENST00000424843 | ENST00000513525 | LRP12 | chr8 | 105544135 | - | CCL28 | chr5 | 43388578 | - |
intron-5UTR | ENST00000424843 | ENST00000537013 | LRP12 | chr8 | 105544135 | - | CCL28 | chr5 | 43388578 | - |
In-frame | ENST00000276654 | ENST00000361115 | LRP12 | chr8 | 105544135 | - | CCL28 | chr5 | 43388578 | - |
5CDS-5UTR | ENST00000276654 | ENST00000513525 | LRP12 | chr8 | 105544135 | - | CCL28 | chr5 | 43388578 | - |
5CDS-5UTR | ENST00000276654 | ENST00000537013 | LRP12 | chr8 | 105544135 | - | CCL28 | chr5 | 43388578 | - |
intron-3CDS | ENST00000518375 | ENST00000361115 | LRP12 | chr8 | 105544135 | - | CCL28 | chr5 | 43388578 | - |
intron-5UTR | ENST00000518375 | ENST00000513525 | LRP12 | chr8 | 105544135 | - | CCL28 | chr5 | 43388578 | - |
intron-5UTR | ENST00000518375 | ENST00000537013 | LRP12 | chr8 | 105544135 | - | CCL28 | chr5 | 43388578 | - |
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FusionProtFeatures for LRP12_CCL28 |
Main function of each fusion partner protein. (from UniProt) |
Hgene | Tgene |
LRP12 | CCL28 |
Probable receptor, which may be involved in theinternalization of lipophilic molecules and/or signaltransduction. May act as a tumor suppressor.{ECO:0000269|PubMed:12809483}. | Chemotactic activity for resting CD4, CD8 T-cells andeosinophils. Binds to CCR3 and CCR10 and induces calciummobilization in a dose-dependent manner. |
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 LRP12_CCL28 |
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_LRP12_ENST00000276654_chr8_105544135_-_CCL28_ENST00000361115_chr5_43388578_-_152aa MACRWSTKESPRWRSALLLLFLAGVYGNGALAEHSENVHISGVSTAILPIASSCCTEVSHHISRRLLERVNMCRIQRADGDCDLAAVILH |
* Fusion transcript sequences (only coding sequence (CDS) region). |
>In-frame_LRP12_ENST00000276654_chr8_105544135_-_CCL28_ENST00000361115_chr5_43388578_-_456nt ATGGCCTGTCGCTGGAGCACAAAAGAGTCTCCGCGGTGGAGGTCTGCGTTGCTCTTGCTTTTCCTCGCTGGGGTGTACGGAAATGGTGCT CTTGCAGAACATTCTGAAAATGTGCATATTTCAGGAGTGTCAACTGCCATACTTCCCATTGCCTCCAGCTGTTGCACGGAGGTTTCACAT CATATTTCCAGAAGGCTCCTGGAAAGAGTGAATATGTGTCGCATCCAGAGAGCTGATGGGGATTGTGACTTGGCTGCTGTCATCCTTCAT GTCAAGCGCAGAAGAATCTGTGTCAGCCCGCACAACCATACTGTTAAGCAGTGGATGAAAGTGCAAGCTGCCAAGAAAAATGGTAAAGGA AATGTTTGCCACAGGAAGAAACACCATGGCAAGAGGAACAGTAACAGGGCACATCAGGGGAAACACGAAACATACGGCCATAAAACTCCT |
* Fusion transcript sequences (Full-length transcript). |
>In-frame_LRP12_ENST00000276654_chr8_105544135_-_CCL28_ENST00000361115_chr5_43388578_-_3232nt GGTGGCTCGGCGGCGGCGGCGGCGGCGGCGGCGGCGTCGGCGTCGTCTACCTCCAGCTTCTCCTCCCTCCTCCTCCGTCTCCTCCTCTCT CTCTCCATCTGCTGTGGTTATGGCCTGTCGCTGGAGCACAAAAGAGTCTCCGCGGTGGAGGTCTGCGTTGCTCTTGCTTTTCCTCGCTGG GGTGTACGGAAATGGTGCTCTTGCAGAACATTCTGAAAATGTGCATATTTCAGGAGTGTCAACTGCCATACTTCCCATTGCCTCCAGCTG TTGCACGGAGGTTTCACATCATATTTCCAGAAGGCTCCTGGAAAGAGTGAATATGTGTCGCATCCAGAGAGCTGATGGGGATTGTGACTT GGCTGCTGTCATCCTTCATGTCAAGCGCAGAAGAATCTGTGTCAGCCCGCACAACCATACTGTTAAGCAGTGGATGAAAGTGCAAGCTGC CAAGAAAAATGGTAAAGGAAATGTTTGCCACAGGAAGAAACACCATGGCAAGAGGAACAGTAACAGGGCACATCAGGGGAAACACGAAAC ATACGGCCATAAAACTCCTTATTAGAGAGTCTACAGATAAATCTACAGAGACAATTCCTCAAGTGGACTTGGCCATGATTGGTTGTAAGT TTATCATCTGAATTCTCCTTATTGTAGACAACAGAACAAAACAAAATATTGGTTTTTAAAAAATGAACAATTGTGCGGTATGCAAATGTA GCCAATAATATACTCAACTGGAAAATGAAATGAAAAGATAATACTGGCTGGGTATGGTGGTTCACACCTTTTATCCCAGCACTTCGGGAG GCTGAGGCAGGAGGATCACTTGAGACCAGGAGTTTGAGACCAGCCTGGGCAACATAGCAAGACCTCATTTCTACAAACAAAAAAAAAATT GGCCCGGCATGGTAGTACTTGCCTATAATCCCAGCCACATGGGAGGCTGAGGTGGGAGGATCACTTGAGTCTGGGAGAGTTTGAGGTTGC AGTGAGCAGCCTGGGTGACAGAATGAGACCCTGTCTCTAAAAATAATAATAATAATGATAGTGTATATCTTCATATAATATTTTAAGAGG AGCATATAGATATAACTTCTCCCAACTTTTTAATTATAGTTTTCCAAACTTACAGAGAAGTTAAAAGAATGGTACAATGAACATCTATAT ATCTTTCACCACAATATTAATCATTGTTAATATTGTGTCACATTTGCTTTCTCTCTCCTCTCTTTGTATGTGTTTCTATATAAAATATTA TAACTTTTAAAATATATCTTGTTTTGCTAAACCATTTGAAAATAAGTTGCAAAAATCATGACACTTCACCCCTAGTTTCTTTTTGGTGTT ATAACTTGACATACCCTAAAATAAAGACATTTTTCTACATAATCACCTTATCAGTTTTATACCTAAAAAATTAATAATTTCATCTAATAT ATTCCATATTCAAATTTTCCCAACTATTTAGAGAGCATTTTATGTAGTTTTTTTTTCACTCCAGTAATCAATCAAGGTTGACATACATAT TGCAAATAATTGTTATTTTTCTTTAATATCTTTCAATCTAAGAAAGTTCCTCTGTCTTTTTTTTTTAATTTTTAAAATTATTTTGTTGAG GGAGGGTCTTGCTGTGTCTTCCAGGCTGGAGTGCAGTGGCACAATTTTGATTTTGGCTCACTGAAGCCTCAACTTCTAGGGCTCAAGCAA TCCTCCCACCTCAGCCTCCCGAGTATCTGGGATCAAGGTGCATACCCACCACACCTGGCTAATTTTGTTTATTTTTTGTAGAGACAGGGT CTCACTATGTTGCCCAGGTTGATCTCAAACTCCTGGGCTCAAGCGATCCTCCCACCTTAGCCTCCCAAAGTACTGGGATTATAGGTGTGA GCCACAGTGCCTGGCCTAATTATTTTCTTGTGATCAAATTCAGGTTTAATGTTTTTGGTTAAGAATTTCCTACGTGAATTCGTGTACTTA TTTTGTCATTTAGAGTTCATAAATATTAGGGTTTATTTTCTAAATAGAATAGTTTAAACTAAATATAACTTCAAAACGTCTAGTTTGAGT AGCTACCGTTGTTTGGATTGAAATTTTCTGATACTGAAAAGAACAAAAAGCCTGCCTTTCTGCCCAGAACCTTTTGCCTCCCCCAGTCAG TTCTTGGAGCAGCACTAGTTAGGGGCCCAGAGTTCGGCCTTCTGTGTGGTGATTTTACGCTCTGCCTAAACAAGGAGCCTACATCTTTTA GCTCCTATTCCACCCTTCTCACACGTTTTTGTTGTTGTTTGGTTGTTTTTTTTTGAGACAGAGTCTCACTCTGTTGCCCAGGCTGGAGTG CAGTGGCACAATCTCGGCTCATTGCAACCTCCGCCTCCCGCGTTCAAGTGATTCTCTTGCCTCAGCCTCCCAAGTAACTGATATTACAGG CGCCCAGCCACCACACCCCGCTGATTTTTGTATTTTTAGTAGAGACGGGGTTTTCCCACGTTGGCCGGGCTGGTCTCAAACTCTTGACCT CAAGTGAACCACCCGCCTGTGCCTCCCAAAGTGCTGGAATTACCAGCGTGAGCCACCATGCCGGGCTCACACGTTTGAGTTGATACCATT GTGCCATTCCTCTTTTGGCCTCTTTTTTGTCCATAGAGGCTTCAAGATAGATAGGTAAGAGCCCAGTAGTGTTCATAAGAAGCCAATAGA GAGCAGGAGCCACTTTATCAGGTGGCAGGTGTCCTGGGCCTCCCTGCTGGCTAGTCCCAAGCGGTGGTGTTGCCAGGATGTCTTGGAGGT GATAATGGGACACACAGAGGCACTGAGTCTCCATAGGTTAAAATGCCACCAAAACTGGCCTTTGCCTAATATCCCTCATTGACTATTTAG CATTTAATTTATTTATTTTCCTGACATTTCTGCAAGCTTTGTATTTATATTTCCACTTTATAGATGAGGAAATTTGAGGCTCTTAGAGGT AAAATGACTTGCCCAGGTCACACAGGAAGTGGCAGAGACAAGCTTTTTAAATAAGAAAAAATTAATAAAATATAATATGAGAGTAACTTA AAATATTAATAAACCACAATTTTAAATTAATTAACCGTGATAACCAACATTAATAAAAGTTAAGATACCAAAACACTGGTGTCTAATTCT |
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FusionGenePPI for LRP12_CCL28 |
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 |
LRP12 | KLRAP1, SPINT2, GLRA2, MRAP2, HTR3A, ASIC4, TMED6, TCTN2, PSG1, IL17RC, FAM189B, MPPE1, ADAM33, KIR3DL2, ZNRF4, DEFA1, SCNN1D | CCL28 | PSMA3, STUB1, DDI1 |
- 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 LRP12_CCL28 |
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 LRP12_CCL28 |
Diseases associated with fusion partners. (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |