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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 20108

FusionGeneSummary for LRP12_CCL28

check button Fusion gene summary
Fusion gene informationFusion gene name: LRP12_CCL28
Fusion gene ID: 20108
HgeneTgene
Gene symbol

LRP12

CCL28

Gene ID

29967

56477

Gene nameLDL receptor related protein 12C-C motif chemokine ligand 28
SynonymsST7CCK1|MEC|SCYA28
Cytomap

8q22.3

5p12

Type of geneprotein-codingprotein-coding
Descriptionlow-density lipoprotein receptor-related protein 12suppressor of tumorigenicity 7 proteinC-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 date2018051920180519
UniProtAcc

Q9Y561

Q9NRJ3

Ensembl transtripts involved in fusion geneENST00000424843, ENST00000276654, 
ENST00000518375, 
ENST00000361115, 
ENST00000513525, ENST00000537013, 
Fusion gene scores* DoF score8 X 3 X 4=962 X 1 X 2=4
# samples 102
** MAII scorelog2(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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneLRP12

GO:0001764

neuron migration

26639854

HgeneLRP12

GO:0031175

neuron projection development

26639854

TgeneCCL28

GO:0001954

positive regulation of cell-matrix adhesion

18308860

TgeneCCL28

GO:0060326

cell chemotaxis

18308860

TgeneCCL28

GO:1903237

negative regulation of leukocyte tethering or rolling

18308860


check button 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 typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGARVKICHTCGA-KL-8341-01ALRP12chr8

105544135

-CCL28chr5

43388578

-
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

check button 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.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
intron-3CDSENST00000424843ENST00000361115LRP12chr8

105544135

-CCL28chr5

43388578

-
intron-5UTRENST00000424843ENST00000513525LRP12chr8

105544135

-CCL28chr5

43388578

-
intron-5UTRENST00000424843ENST00000537013LRP12chr8

105544135

-CCL28chr5

43388578

-
In-frameENST00000276654ENST00000361115LRP12chr8

105544135

-CCL28chr5

43388578

-
5CDS-5UTRENST00000276654ENST00000513525LRP12chr8

105544135

-CCL28chr5

43388578

-
5CDS-5UTRENST00000276654ENST00000537013LRP12chr8

105544135

-CCL28chr5

43388578

-
intron-3CDSENST00000518375ENST00000361115LRP12chr8

105544135

-CCL28chr5

43388578

-
intron-5UTRENST00000518375ENST00000513525LRP12chr8

105544135

-CCL28chr5

43388578

-
intron-5UTRENST00000518375ENST00000537013LRP12chr8

105544135

-CCL28chr5

43388578

-

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FusionProtFeatures for LRP12_CCL28


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LRP12

Q9Y561

CCL28

Q9NRJ3

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.

check buttonRetention 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

download page

.

* 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.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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FusionGeneSequence for LRP12_CCL28


check button 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


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page

.

check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors
LRP12KLRAP1, SPINT2, GLRA2, MRAP2, HTR3A, ASIC4, TMED6, TCTN2, PSG1, IL17RC, FAM189B, MPPE1, ADAM33, KIR3DL2, ZNRF4, DEFA1, SCNN1DCCL28PSMA3, STUB1, DDI1


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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RelatedDrugs for LRP12_CCL28


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for LRP12_CCL28


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource