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Ccl27a chemokine (C-C motif) ligand 27A [ Mus musculus (house mouse) ]

Gene ID: 20301, updated on 16-Oct-2021

Summary

Official Symbol
Ccl27aprovided by MGI
Official Full Name
chemokine (C-C motif) ligand 27Aprovided by MGI
Primary source
MGI:MGI:1343459
See related
Ensembl:ENSMUSG00000073888
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
ALP; ILC; CTAK; CTACK; Ccl27; PESKY; ESkine; Scya27; Scya27a; AW558992
Expression
Broad expression in testis adult (RPKM 85.9), cortex adult (RPKM 62.4) and 21 other tissues See more
Orthologs
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Genomic context

See Ccl27a in Genome Data Viewer
Location:
4 A5; 4 22.08 cM
Exon count:
8
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (41769467..41774251, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (41769467..41774225, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 4 NC_000070.5 (41716340..41721049, complement)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene sigma non-opioid intracellular receptor 1 Neighboring gene predicted gene, 42274 Neighboring gene interleukin 11 receptor, alpha chain 1 Neighboring gene galactose-1-phosphate uridyl transferase Neighboring gene family with sequence similarity 205, member A4 Neighboring gene predicted gene 12407 Neighboring gene ethanol induced 1 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2) 

Pathways from PubChem

General gene information

Markers

Homology

Clone Names

  • MGC130150

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables CCR3 chemokine receptor binding ISO
Inferred from Sequence Orthology
more info
 
enables chemokine activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables chemokine activity IDA
Inferred from Direct Assay
more info
PubMed 
enables cytokine activity IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
is_active_in extracellular region IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in extracellular region IDA
Inferred from Direct Assay
more info
PubMed 
NOT located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
C-C motif chemokine 27
Names
CC chemokine ILC
IL-11 R-alpha-locus chemokine
cutaneous T-cell-attracting chemokine
skinkine
skinskine
small inducible cytokine A27a

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001048179.2NP_001041644.1  C-C motif chemokine 27 isoform 1

    See identical proteins and their annotated locations for NP_001041644.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AL807796, BY294493, CA451425
    Consensus CDS
    CCDS38721.1
    UniProtKB/TrEMBL
    A2AMS7
    Related
    ENSMUSP00000103672.3, ENSMUST00000108037.9
    Conserved Domains (1) summary
    cl00134
    Location:78127
    Chemokine; small cytokines, including a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; distinguished from other cytokines by their receptors, which are G-protein coupled receptors; divided into 4 ...
  2. NM_001164044.2NP_001157516.1  C-C motif chemokine 27 isoform 3

    See identical proteins and their annotated locations for NP_001157516.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR and coding region, compared to variant 1. The encoded isoform (3) is shorter and has a distinct C-terminus, compared to isoform 1. Variants 3 and 4 encode the same isoform (3).
    Source sequence(s)
    AK005753, AL807796
    Consensus CDS
    CCDS51144.1
    UniProtKB/TrEMBL
    A2AMS8
    Related
    ENSMUSP00000103667.3, ENSMUST00000108032.3
  3. NM_001164045.2NP_001157517.1  C-C motif chemokine 27 isoform 3

    See identical proteins and their annotated locations for NP_001157517.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in both UTRs and the 3' coding region, compared to variant 1. The encoded isoform (3) is shorter and has a distinct C-terminus, compared to isoform 1. Variants 3 and 4 encode the same isoform (3).
    Source sequence(s)
    AL807796, BC099574
    Consensus CDS
    CCDS51144.1
    UniProtKB/TrEMBL
    A2AMS8
    Related
    ENSMUSP00000133827.2, ENSMUST00000173865.9
  4. NM_001347065.1NP_001333994.1  C-C motif chemokine 27 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) uses an alternate splice junction compared to variant 1. The resulting isoform (4) is shorter at the N-terminus compared to isoform 1.
    Source sequence(s)
    AL807796
    Consensus CDS
    CCDS84714.1
    UniProtKB/TrEMBL
    A2AMS6
    Conserved Domains (1) summary
    cl00134
    Location:4190
    Chemokine; small cytokines, including a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; distinguished from other cytokines by their receptors, which are G-protein coupled receptors; divided into 4 ...
  5. NM_001361246.1NP_001348175.1  C-C motif chemokine 27 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL807796
    Consensus CDS
    CCDS38721.1
    Related
    ENSMUSP00000103671.2, ENSMUST00000108036.8
    Conserved Domains (1) summary
    cl00134
    Location:78127
    Chemokine; small cytokines, including a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; distinguished from other cytokines by their receptors, which are G-protein coupled receptors; divided into 4 ...
  6. NM_011336.2NP_035466.1  C-C motif chemokine 27 isoform 2 precursor

    See identical proteins and their annotated locations for NP_035466.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' exon structure and has multiple coding region differences, compared to variant 1. These differences cause translation initiation at an alternate start codon and result in an isoform (2) with a shorter and distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    AB013398, CA451425
    Consensus CDS
    CCDS18072.1
    UniProtKB/Swiss-Prot
    Q9Z1X0
    UniProtKB/TrEMBL
    A0A0R4J0X6
    Related
    ENSMUSP00000073990.4, ENSMUST00000074387.4
    Conserved Domains (1) summary
    cl00134
    Location:3483
    Chemokine; Chemokine: small cytokines, including a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; distinguished from other cytokines by their receptors, which are G-protein coupled receptors; divided ...

RNA

  1. NR_154591.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL807796

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    41769467..41774251 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030253369.2XP_030109229.1  C-C motif chemokine 27 isoform X2

    Conserved Domains (1) summary
    pfam00048
    Location:56116
    IL8; Small cytokines (intecrine/chemokine), interleukin-8 like
  2. XM_011249967.4XP_011248269.1  C-C motif chemokine 27 isoform X1

    See identical proteins and their annotated locations for XP_011248269.1

    UniProtKB/TrEMBL
    A2AMS7
    Conserved Domains (1) summary
    cl00134
    Location:78127
    Chemokine; small cytokines, including a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; distinguished from other cytokines by their receptors, which are G-protein coupled receptors; divided into 4 ...
  3. XM_006537705.5XP_006537768.1  C-C motif chemokine 27 isoform X2

    Conserved Domains (1) summary
    pfam00048
    Location:56116
    IL8; Small cytokines (intecrine/chemokine), interleukin-8 like
  4. XM_006537704.4XP_006537767.1  C-C motif chemokine 27 isoform X1

    See identical proteins and their annotated locations for XP_006537767.1

    UniProtKB/TrEMBL
    A2AMS7
    Conserved Domains (1) summary
    cl00134
    Location:78127
    Chemokine; small cytokines, including a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; distinguished from other cytokines by their receptors, which are G-protein coupled receptors; divided into 4 ...
  5. XM_030253370.1XP_030109230.1  C-C motif chemokine 27 isoform X3

    Conserved Domains (1) summary
    cl00134
    Location:4190
    Chemokine; small cytokines, including a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; distinguished from other cytokines by their receptors, which are G-protein coupled receptors; divided into 4 ...
  6. XM_036163926.1XP_036019819.1  C-C motif chemokine 27 isoform X2

    Conserved Domains (1) summary
    pfam00048
    Location:56116
    IL8; Small cytokines (intecrine/chemokine), interleukin-8 like
  7. XM_006537706.5XP_006537769.1  C-C motif chemokine 27 isoform X3

    See identical proteins and their annotated locations for XP_006537769.1

    UniProtKB/TrEMBL
    A2AMS6
    Related
    ENSMUSP00000103670.2, ENSMUST00000108035.8
    Conserved Domains (1) summary
    cl00134
    Location:4190
    Chemokine; small cytokines, including a number of secreted growth factors and interferons involved in mitogenic, chemotactic, and inflammatory activity; distinguished from other cytokines by their receptors, which are G-protein coupled receptors; divided into 4 ...

RNA

  1. XR_004941854.1 RNA Sequence

  2. XR_004941852.1 RNA Sequence

  3. XR_004941853.1 RNA Sequence

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