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CMTM4 CKLF like MARVEL transmembrane domain containing 4 [ Homo sapiens (human) ]

Gene ID: 146223, updated on 10-Oct-2023

Summary

Official Symbol
CMTM4provided by HGNC
Official Full Name
CKLF like MARVEL transmembrane domain containing 4provided by HGNC
Primary source
HGNC:HGNC:19175
See related
Ensembl:ENSG00000183723 MIM:607887; AllianceGenome:HGNC:19175
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
CKLFSF4
Summary
This gene belongs to the chemokine-like factor gene superfamily, a novel family that is similar to the chemokine and the transmembrane 4 superfamilies of signaling molecules. This gene is one of several chemokine-like factor genes located in a cluster on chromosome 16. Alternatively spliced transcript variants encoding different isoforms have been identified. [provided by RefSeq, Jul 2008]
Expression
Broad expression in thyroid (RPKM 48.0), kidney (RPKM 20.0) and 16 other tissues See more
Orthologs
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Genomic context

See CMTM4 in Genome Data Viewer
Location:
16q21-q22.1
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (66598178..66696743, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (72359915..72491037, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (66648653..66730646, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene CKLF-CMTM1 readthrough Neighboring gene CKLF like MARVEL transmembrane domain containing 1 Neighboring gene CKLF like MARVEL transmembrane domain containing 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7561 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7562 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:66642903-66643714 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:66653785-66654286 Neighboring gene CKLF like MARVEL transmembrane domain containing 3 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:66677635-66677813 Neighboring gene Sharpr-MPRA regulatory region 8452 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:66708833-66709036 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:66710611-66711112 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:66725551-66726230 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:66726231-66726910 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:66726911-66727590 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:66729849-66730688 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7565 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7566 Neighboring gene dynein cytoplasmic 1 light intermediate chain 2 Neighboring gene MPRA-validated peak2616 silencer Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:66785153-66785868 Neighboring gene DYNC1LI2 divergent transcript Neighboring gene telomere repeat binding bouquet formation protein 1

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?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
CKLF-like MARVEL transmembrane domain-containing protein 4
Names
chemokine-like factor super family 4
chemokine-like factor superfamily member 4

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_178818.3NP_848933.1  CKLF-like MARVEL transmembrane domain-containing protein 4 isoform 1

    See identical proteins and their annotated locations for NP_848933.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC018557, AF521889
    Consensus CDS
    CCDS10817.1
    UniProtKB/Swiss-Prot
    Q52M40, Q8IZR4, Q8IZR5, Q8IZV1
    Related
    ENSP00000333833.4, ENST00000330687.8
    Conserved Domains (1) summary
    pfam01284
    Location:49170
    MARVEL; Membrane-associating domain
  2. NM_181521.3NP_852662.1  CKLF-like MARVEL transmembrane domain-containing protein 4 isoform 2

    See identical proteins and their annotated locations for NP_852662.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) includes an additional segment in the 3' coding region that leads to an upstream stop codon, compared to variant 1. The encoded protein (isoform 2) has a shorter C-terminus compared to isoform 1.
    Source sequence(s)
    AC018557, AF479814, AW207043
    Consensus CDS
    CCDS42170.1
    UniProtKB/Swiss-Prot
    Q8IZR5
    Related
    ENSP00000377666.2, ENST00000394106.7
    Conserved Domains (1) summary
    pfam01284
    Location:49170
    MARVEL; Membrane-associating domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    66598178..66696743 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017022954.2XP_016878443.1  CKLF-like MARVEL transmembrane domain-containing protein 4 isoform X1

  2. XM_011522882.2XP_011521184.1  CKLF-like MARVEL transmembrane domain-containing protein 4 isoform X2

    See identical proteins and their annotated locations for XP_011521184.1

    UniProtKB/Swiss-Prot
    Q8IZR5
    Related
    ENSP00000456380.1, ENST00000563952.1
    Conserved Domains (1) summary
    pfam01284
    Location:34141
    MARVEL; Membrane-associating domain

RNA

  1. XR_933209.3 RNA Sequence

  2. XR_933210.3 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    72359915..72491037 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054379651.1XP_054235626.1  CKLF-like MARVEL transmembrane domain-containing protein 4 isoform X3

  2. XM_054379652.1XP_054235627.1  CKLF-like MARVEL transmembrane domain-containing protein 4 isoform X4

  3. XM_054379653.1XP_054235628.1  CKLF-like MARVEL transmembrane domain-containing protein 4 isoform X5

  4. XM_054379654.1XP_054235629.1  CKLF-like MARVEL transmembrane domain-containing protein 4 isoform X6

  5. XM_054379655.1XP_054235630.1  CKLF-like MARVEL transmembrane domain-containing protein 4 isoform X1

  6. XM_054379656.1XP_054235631.1  CKLF-like MARVEL transmembrane domain-containing protein 4 isoform X2

RNA

  1. XR_008489057.1 RNA Sequence

  2. XR_008489058.1 RNA Sequence