Human Gene CCL27 (ENST00000259631.5_7) from GENCODE V47lift37
  Description: C-C motif chemokine ligand 27 (from RefSeq NM_006664.4)
Gencode Transcript: ENST00000259631.5_7
Gencode Gene: ENSG00000213927.4_10
Transcript (Including UTRs)
   Position: hg19 chr9:34,661,887-34,662,654 Size: 768 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg19 chr9:34,661,941-34,662,630 Size: 690 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:34,661,887-34,662,654)mRNA (may differ from genome)Protein (112 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CCL27_HUMAN
DESCRIPTION: RecName: Full=C-C motif chemokine 27; AltName: Full=CC chemokine ILC; AltName: Full=Cutaneous T-cell-attracting chemokine; Short=CTACK; AltName: Full=ESkine; AltName: Full=IL-11 R-alpha-locus chemokine; AltName: Full=Skinkine; AltName: Full=Small-inducible cytokine A27; Flags: Precursor;
FUNCTION: Chemotactic factor that attracts skin-associated memory T-lymphocytes. May play a role in mediating homing of lymphocytes to cutaneous sites. Binds to CCR10.
SUBUNIT: Monomer, dimer, and tetramer. Heparin avidly promotes oligomerization.
SUBCELLULAR LOCATION: Secreted.
TISSUE SPECIFICITY: Testis, thymus, placenta, ovary and skin.
SIMILARITY: Belongs to the intercrine beta (chemokine CC) family.
WEB RESOURCE: Name=Wikipedia; Note=CCL27 entry; URL="http://en.wikipedia.org/wiki/CCL27";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: CCL27
Diseases sorted by gene-association score: dermatitis (6), atopic dermatitis (5), contact dermatitis (3), malignant anus melanoma (2), breast metaplastic carcinoma (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 53.65 RPKM in Skin - Not Sun Exposed (Suprapubic)
Total median expression: 124.74 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR 0.00240.000 Picture PostScript Text
3' UTR -4.7054-0.087 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001811 - Chemokine_IL8-like_dom

Pfam Domains:
PF00048 - Small cytokines (intecrine/chemokine), interleukin-8 like

SCOP Domains:
54117 - Interleukin 8-like chemokines

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2KUM - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q9Y4X3
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005125 cytokine activity
GO:0008009 chemokine activity
GO:0031728 CCR3 chemokine receptor binding

Biological Process:
GO:0006935 chemotaxis
GO:0006955 immune response
GO:0007186 G-protein coupled receptor signaling pathway
GO:0007267 cell-cell signaling
GO:0010469 regulation of receptor activity
GO:0031640 killing of cells of other organism
GO:0060326 cell chemotaxis

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space


-  Descriptions from all associated GenBank mRNAs
  AB010445 - Homo sapiens mRNA for CC chemokine ILC, complete cds.
BC037171 - Homo sapiens, clone IMAGE:5248278, mRNA, partial cds.
AJ243542 - Homo sapiens mRNA for CCL27 chemokine.
AF082393 - Homo sapiens skinkine mRNA, complete cds.
JD354510 - Sequence 335534 from Patent EP1572962.
BC166648 - Synthetic construct Homo sapiens clone IMAGE:100066374, MGC:195511 chemokine (C-C motif) ligand 27 (CCL27) mRNA, encodes complete protein.
BC148263 - Homo sapiens CCL27 protein (CCL27) mRNA, partial cds.
JD228082 - Sequence 209106 from Patent EP1572962.
JD442052 - Sequence 423076 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9Y4X3 (Reactome details) participates in the following event(s):

R-HSA-373086 Receptor CCR10 binds CCL27 and 28 ligands
R-HSA-749454 The Ligand:GPCR:Gi complex dissociates
R-HSA-749456 Liganded Gi-activating GPCRs bind inactive heterotrimeric G-protein Gi
R-HSA-380073 Liganded Gi-activating GPCR acts as a GEF for Gi
R-HSA-380108 Chemokine receptors bind chemokines
R-HSA-418594 G alpha (i) signalling events
R-HSA-375276 Peptide ligand-binding receptors
R-HSA-388396 GPCR downstream signalling
R-HSA-373076 Class A/1 (Rhodopsin-like receptors)
R-HSA-372790 Signaling by GPCR
R-HSA-500792 GPCR ligand binding
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: CCL27_HUMAN, ENST00000259631.1, ENST00000259631.2, ENST00000259631.3, ENST00000259631.4, ILC, NM_006664, Q9Y4X3, SCYA27, uc317ghg.1, uc317ghg.2
UCSC ID: ENST00000259631.5_7
RefSeq Accession: NM_006664.4
Protein: Q9Y4X3 (aka CCL27_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.