Ccl27b (C-C motif chemokine ligand 27b) - Rat Genome Database

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Gene: Ccl27b (C-C motif chemokine ligand 27b) Mus musculus
Analyze
No known orthologs.
Symbol: Ccl27b
Name: C-C motif chemokine ligand 27b
RGD ID: 2302732
MGI Page MGI
Description: Predicted to enable CCR3 chemokine receptor binding activity. Predicted to be involved in antimicrobial humoral immune response mediated by antimicrobial peptide and killing of cells of another organism. Is expressed in pelvic ganglion; urethra of female; and urethra of male. Orthologous to human CCL27 (C-C motif chemokine ligand 27).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: chemokine (C-C motif) ligand 27b; CTAC; Ctack; ENSMUSG00000066202; Scya2; Scya27b; small inducible cytokine A27b
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39442,650,563 - 42,656,008 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl442,655,251 - 42,655,998 (+)EnsemblGRCm39 Ensembl
GRCm39 Ensembl442,153,436 - 42,158,839 (+)EnsemblGRCm39 Ensembl
GRCm38442,650,563 - 42,656,008 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl442,655,251 - 42,655,998 (+)EnsemblGRCm38mm10GRCm38
MGSCv37442,667,441 - 42,669,535 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36442,647,787 - 42,669,540 (+)NCBIMGSCv36mm8
Cytogenetic Map4A5NCBI
cM Map422.73NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11123313   PMID:11544199   PMID:12080938   PMID:12466851   PMID:18287559   PMID:35663027  


Genomics

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:118
Count of miRNA genes:113
Interacting mature miRNAs:115
Transcripts:ENSMUST00000177785
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301203Alcp8_malcohol preference locus 8 (mouse)Not determined41739516051395290Mouse
1301586Stheal3_msoft tissue heal 3 (mouse)Not determined42865844262658566Mouse
10401115Pgia35_mproteoglycan induced arthritis 35 (mouse)Not determined41256237746562509Mouse
39128211Lwq22_mliver weight QTL 22 (mouse)41789261688982216Mouse
1558992Ses8_msalmonella enteritidis susceptibility 8 (mouse)Not determined4868324042683429Mouse
1301786Bpq3_mblood pressure QTL 3 (mouse)Not determined44240224076402381Mouse
4141302Ssrq5_mstress response QTL 5 (mouse)Not determined868324042683430Mouse
4141555Nbwa2_mNZB and NZW autoimmunity 2 (mouse)Not determined41789251551892635Mouse
10412178Habiir2_mhyperoxic acute lung injury imprinted region 2 (mouse)Not determined43945212663283678Mouse
1300574Im2_mimmunoregulatory 2 (mouse)Not determined42807768262077816Mouse
4142318Lyr2_mlymphoma resistance 2 (mouse)Not determined1401045763283678Mouse
12880405Jcdq1_mjoint cartilage degeneration QTL 1 (mouse)41256237746562509Mouse
1301697Sluc18_msusceptibility to lung cancer 18 (mouse)Not determined42237344856373612Mouse
1357453Kidq4_mkidney weight QTL 4 (mouse)Not determined41789261688982216Mouse
4142047Mvwf3_mmodifier of von Willebrand factor 3 (mouse)Not determined14010457117072206Mouse
1357877Synch1_msynechia 1 (mouse)Not determined42870992562710107Mouse
11567249Elorr3_methanol induced loss of righting response 3 (mouse)43722677156268235Mouse
1300977Mopkd1_mmodifier of polycystic kidney disease progression 1 (mouse)Not determined43655083970550967Mouse
25440481Moaq1_mmodifier of alien QTL 1 (mouse)41950000046000000Mouse
1301237Alcp7_malcohol preference locus 7 (mouse)Not determined41739516051395290Mouse
1302075Bdln6_mbody length 6 (mouse)Not determined42237344856373612Mouse
4141911W6q15_mweight 6 weeks QTL 15 (mouse)Not determined1789261688982216Mouse
1302010Wta1_mweight adult 1 (mouse)Not determined4868324042683429Mouse
4142290Ssrq9_mstress response QTL 9 (mouse)Not determined3439516046332776Mouse
1301437Scon1_msucrose consumption 1 (mouse)Not determined42237344856373612Mouse
10401905Sicd3_mseizure-induced cell death 3 (mouse)Not determined4939552543760862Mouse
1301473Triglq1_mtriglyceride QTL 1 (mouse)Not determined4868324042683429Mouse
1300769Pcyts2_mplasmacytoma susceptibility 2 (mouse)Not determined42211194456112145Mouse
1301792Hdlq10_mHDL QTL 10 (mouse)Not determined43585970769859853Mouse
1301990Arvm1_mautoimmune renal vasculitis 1 (mouse)Not determined42933264663332776Mouse
1302116Bbaa1_mB.burgdorferi-associated arthritis 1 (mouse)Not determined43825093072251078Mouse
1302058Hrtfm3_mheart failure modifier 3 (mouse)Not determined42211194456112145Mouse
1302184Aaom1_mautoimmune aoritis in MRL mice 1 (mouse)Not determined42432229946332776Mouse
26884449Sklq2_mskull length QTL 2, 5 week (mouse)436700000128993793Mouse
1302125Lxw1_mlupus BXSB x NZW 1 (mouse)Not determined4868324042683429Mouse


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001199959 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001199960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001199961 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001384259 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001384260 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006537503 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036163520 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036163521 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036163522 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036163523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036163524 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036163525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004941788 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004941789 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AK005520 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC028511 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX548253 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX666061 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY270541 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY705727 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK346917 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000177785   ⟹   ENSMUSP00000137284
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl442,655,251 - 42,655,998 (+)Ensembl
GRCm38.p6 Ensembl442,655,251 - 42,655,998 (+)Ensembl
RefSeq Acc Id: NM_001199959   ⟹   NP_001186888
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,655,250 - 42,656,008 (+)NCBI
GRCm38442,655,251 - 42,656,005 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001199960   ⟹   NP_001186889
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,563 - 42,656,008 (+)NCBI
GRCm38442,653,909 - 42,656,005 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001199961   ⟹   NP_001186890
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,563 - 42,656,008 (+)NCBI
GRCm38442,650,604 - 42,656,005 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001384259   ⟹   NP_001371188
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,563 - 42,656,008 (+)NCBI
GRCm38442,650,563 - 42,656,008 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001384260   ⟹   NP_001371189
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,563 - 42,656,008 (+)NCBI
GRCm38442,650,563 - 42,656,008 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006537503   ⟹   XP_006537566
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,972 - 42,656,000 (+)NCBI
GRCm38442,651,276 - 42,656,000 (+)NCBI
Sequence:
RefSeq Acc Id: XM_036163520   ⟹   XP_036019413
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,587 - 42,656,000 (+)NCBI
Sequence:
RefSeq Acc Id: XM_036163521   ⟹   XP_036019414
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,596 - 42,656,000 (+)NCBI
Sequence:
RefSeq Acc Id: XM_036163522   ⟹   XP_036019415
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,675 - 42,656,000 (+)NCBI
Sequence:
RefSeq Acc Id: XM_036163523   ⟹   XP_036019416
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,972 - 42,656,000 (+)NCBI
Sequence:
RefSeq Acc Id: XM_036163524   ⟹   XP_036019417
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,972 - 42,656,000 (+)NCBI
Sequence:
RefSeq Acc Id: XM_036163525   ⟹   XP_036019418
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,675 - 42,656,000 (+)NCBI
Sequence:
RefSeq Acc Id: XR_004941788
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,563 - 42,655,998 (+)NCBI
Sequence:
RefSeq Acc Id: XR_004941789
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39442,650,583 - 42,655,998 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001186890   ⟸   NM_001199961
- Peptide Label: isoform 1
- UniProtKB: Q9Z1X0 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006537566   ⟸   XM_006537503
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: NP_001186889   ⟸   NM_001199960
- Peptide Label: isoform 3
- Sequence:
RefSeq Acc Id: NP_001186888   ⟸   NM_001199959
- Peptide Label: isoform 2 precursor
- UniProtKB: Q9Z1X0 (UniProtKB/Swiss-Prot),   Q9DAZ4 (UniProtKB/Swiss-Prot),   Q9DAU6 (UniProtKB/Swiss-Prot),   Q3KNL1 (UniProtKB/Swiss-Prot),   A2AMS5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001371189   ⟸   NM_001384260
- Peptide Label: isoform 5
RefSeq Acc Id: NP_001371188   ⟸   NM_001384259
- Peptide Label: isoform 4
Ensembl Acc Id: ENSMUSP00000137284   ⟸   ENSMUST00000177785
RefSeq Acc Id: XP_036019413   ⟸   XM_036163520
- Peptide Label: isoform X1
RefSeq Acc Id: XP_036019414   ⟸   XM_036163521
- Peptide Label: isoform X2
RefSeq Acc Id: XP_036019415   ⟸   XM_036163522
- Peptide Label: isoform X3
RefSeq Acc Id: XP_036019418   ⟸   XM_036163525
- Peptide Label: isoform X3
RefSeq Acc Id: XP_036019417   ⟸   XM_036163524
- Peptide Label: isoform X3
RefSeq Acc Id: XP_036019416   ⟸   XM_036163523
- Peptide Label: isoform X3

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9Z1X0-F1-model_v2 AlphaFold Q9Z1X0 1-120 view protein structure

Promoters
RGD ID:6883152
Promoter ID:EPDNEW_M5027
Type:initiation region
Name:Ccl27b_1
Description:Mus musculus chemokine (C-C motif) ligand 27b , transcript variant3, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38442,650,665 - 42,650,725EPDNEW
RGD ID:6883154
Promoter ID:EPDNEW_M5028
Type:initiation region
Name:Gm13306_1
Description:Mus musculus predicted gene 13306 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38442,655,250 - 42,655,310EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1891389 AgrOrtholog
Ensembl Genes ENSMUSG00000073877 Ensembl, UniProtKB/Swiss-Prot
  ENSMUSG00000096826 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000098122.3 UniProtKB/Swiss-Prot
  ENSMUST00000108018.9 UniProtKB/Swiss-Prot
  ENSMUST00000177785 ENTREZGENE
  ENSMUST00000177785.3 UniProtKB/Swiss-Prot
Gene3D-CATH 2.40.50.40 UniProtKB/Swiss-Prot
InterPro Chemokine_IL8-like_dom UniProtKB/Swiss-Prot
  Interleukin_8-like_sf UniProtKB/Swiss-Prot
KEGG Report mmu:100039863 UniProtKB/Swiss-Prot
  mmu:100040048 UniProtKB/Swiss-Prot
  mmu:20301 UniProtKB/Swiss-Prot
MGD MGI:1891389 ENTREZGENE
NCBI Gene Ccl27b ENTREZGENE
Pfam IL8 UniProtKB/Swiss-Prot
PhenoGen Ccl27b PhenoGen
SMART SCY UniProtKB/Swiss-Prot
Superfamily-SCOP Interleukin 8-like chemokines UniProtKB/Swiss-Prot
UniProt A2AMS5 ENTREZGENE
  CCL27_MOUSE UniProtKB/Swiss-Prot
  Q3KNL1 ENTREZGENE
  Q9DAU6 ENTREZGENE
  Q9DAZ4 ENTREZGENE
  Q9Z1X0 ENTREZGENE
UniProt Secondary Q3KNL1 UniProtKB/Swiss-Prot
  Q9DAU6 UniProtKB/Swiss-Prot
  Q9DAZ4 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-08-21 Ccl27b  C-C motif chemokine ligand 27b  Scya27b  small inducible cytokine A27b  Symbol and/or name change 5135510 APPROVED
2024-08-21 Scya27b  small inducible cytokine A27b  Ccl27b  chemokine (C-C motif) ligand 27b  Symbol and/or name change 5135510 APPROVED
2024-08-21 Ccl27b  chemokine (C-C motif) ligand 27b  Ccl27b  C-C motif chemokine ligand 27b  Symbol and/or name change 5135510 APPROVED
2023-06-27 Ccl27b  C-C motif chemokine ligand 27b  Ccl27b  chemokine (C-C motif) ligand 27b  Symbol and/or name change 5135510 APPROVED
2014-09-17 Ccl27b  chemokine (C-C motif) ligand 27b  ENSMUSG00000066202  predicted gene, ENSMUSG00000066202  Symbol and/or name change 5135510 APPROVED