Format

Send to:

Choose Destination

CKLF chemokine like factor [ Homo sapiens (human) ]

Gene ID: 51192, updated on 13-Mar-2020

Summary

Official Symbol
CKLFprovided by HGNC
Official Full Name
chemokine like factorprovided by HGNC
Primary source
HGNC:HGNC:13253
See related
Ensembl:ENSG00000217555 MIM:616074
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
C32; CKLF1; CKLF2; CKLF3; CKLF4; UCK-1; HSPC224
Summary
The product of this gene is a cytokine. Cytokines are small proteins that have an essential role in the immune and inflammatory responses. This gene is one of several chemokine-like factor genes located in a cluster on chromosome 16. The protein encoded by this gene is a potent chemoattractant for neutrophils, monocytes and lymphocytes. It also can stimulate the proliferation of skeletal muscle cells. This protein may play important roles in inflammation and in the regeneration of skeletal muscle. Alternatively spliced transcript variants encoding different isoforms have been identified. Naturally occurring read-through transcription occurs between this locus and the neighboring locus CMTM1 (CKLF-like MARVEL transmembrane domain containing 1).[provided by RefSeq, Feb 2011]
Expression
Ubiquitous expression in appendix (RPKM 18.6), testis (RPKM 17.1) and 24 other tissues See more
Orthologs

Genomic context

See CKLF in Genome Data Viewer
Location:
16q21
Exon count:
5
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 16 NC_000016.10 (66552563..66566287)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (66586466..66603832)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene brain expressed associated with NEDD4 1 Neighboring gene BEAN1 antisense RNA 1 Neighboring gene thymidine kinase 2 Neighboring gene CKLF-CMTM1 readthrough Neighboring gene CKLF like MARVEL transmembrane domain containing 1 Neighboring gene CKLF like MARVEL transmembrane domain containing 2

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of chemokine-like factor (CKLF; HSPC224) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells PubMed
Knockdown of chemokine-like factor (CKLF) by siRNA has both activating and inhibiting activities on HIV-1 replication in HeLa P4/R5 cells, suggesting a regulatory role in HIV replication PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Readthrough CKLF-CMTM1

Readthrough gene: CKLF-CMTM1, Included gene: CMTM1

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
chemokine activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
lymphocyte chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
macrophage chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
neutrophil chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
secretion by cell IDA
Inferred from Direct Assay
more info
PubMed 
signal transduction IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
extracellular region IDA
Inferred from Direct Assay
more info
PubMed 
extracellular space IEA
Inferred from Electronic Annotation
more info
 
integral component of membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of membrane IDA
Inferred from Direct Assay
more info
PubMed 
membrane HDA PubMed 

General protein information

Preferred Names
chemokine-like factor
Names
chemokine-like factor 1
chemokine-like factor 2
chemokine-like factor 3
chemokine-like factor 4
transmembrane proteolipid

NCBI Reference Sequences (RefSeq)

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_001040138.2NP_001035228.1  chemokine-like factor isoform e

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the coding region and 3' UTR, compared to variant 1. The encoded isoform (e) is shorter and contains a unique C-terminus, compared to isoform a.
    Source sequence(s)
    BU189908, DA113473, DA804889
    Consensus CDS
    CCDS45502.1
    UniProtKB/Swiss-Prot
    Q9UBR5
    Related
    ENSP00000416678.2, ENST00000417030.2
  2. NM_016326.3NP_057410.1  chemokine-like factor isoform c

    See identical proteins and their annotated locations for NP_057410.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks two an in-frame exons in the coding region, compared to variant 1. It encodes a shorter isoform (c), also known as an isoform CKL3.
    Source sequence(s)
    AF135381, BU189908, DA113473
    Consensus CDS
    CCDS10806.1
    UniProtKB/Swiss-Prot
    Q9UBR5
    Related
    ENSP00000355417.4, ENST00000362093.4
  3. NM_016951.4NP_058647.1  chemokine-like factor isoform a

    See identical proteins and their annotated locations for NP_058647.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript, and encodes the longest isoform (a), also known as an isoform CKLF2.
    Source sequence(s)
    AF135380
    Consensus CDS
    CCDS10807.1
    UniProtKB/Swiss-Prot
    Q9UBR5
    Related
    ENSP00000264001.4, ENST00000264001.8
    Conserved Domains (1) summary
    pfam01284
    Location:2698
    MARVEL; Membrane-associating domain
  4. NM_181640.2NP_857591.1  chemokine-like factor isoform b

    See identical proteins and their annotated locations for NP_857591.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame segment of the coding region, compared to variant 1. It encodes a shorter isoform (b), also known as an isoform CKLF1.
    Source sequence(s)
    AF096895, BU189908, DA113473
    Consensus CDS
    CCDS10808.1
    UniProtKB/Swiss-Prot
    Q9UBR5
    UniProtKB/TrEMBL
    Q5BJH6
    Related
    ENSP00000264003.4, ENST00000351137.8
  5. NM_181641.2NP_857592.1  chemokine-like factor isoform d

    See identical proteins and their annotated locations for NP_857592.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks an in-frame segment of the coding region, compared to variant 1. It encodes a shorter isoform (d), also known as an isoform CKLF4.
    Source sequence(s)
    AF145216, BU189908, DA113473
    Consensus CDS
    CCDS10809.1
    UniProtKB/Swiss-Prot
    Q9UBR5
    Related
    ENSP00000290771.4, ENST00000345436.8

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p13 Primary Assembly

    Range
    66552563..66566287
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001040139.1: Suppressed sequence

    Description
    NM_001040139.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
Support Center