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CLGN calmegin [ Homo sapiens (human) ]

Gene ID: 1047, updated on 1-Jun-2020

Summary

Official Symbol
CLGNprovided by HGNC
Official Full Name
calmeginprovided by HGNC
Primary source
HGNC:HGNC:2060
See related
Ensembl:ENSG00000153132 MIM:601858
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
Summary
Calmegin is a testis-specific endoplasmic reticulum chaperone protein. CLGN may play a role in spermatogeneisis and infertility. [provided by RefSeq, Jul 2008]
Expression
Biased expression in testis (RPKM 66.0), heart (RPKM 22.6) and 2 other tissues See more
Orthologs

Genomic context

See CLGN in Genome Data Viewer
Location:
4q31.1
Exon count:
16
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 4 NC_000004.12 (140388453..140427661, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (141309607..141348815, complement)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene short coiled-coil protein Neighboring gene SCOC antisense RNA 1 Neighboring gene NADH:ubiquinone oxidoreductase subunit B4 pseudogene 9 Neighboring gene ribosomal protein L14 pseudogene 3 Neighboring gene MGAT4 family member D Neighboring gene ELMO 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

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120 is identified to have a physical interaction with calmegin (CLGN) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed
Envelope surface glycoprotein gp160, precursor env HIV-1 gp160 interacts with CLGN; predicted interaction to be within the endoplasmic reticulum PubMed
env HIV-1 gp160 is identified to have a physical interaction with calmegin (CLGN) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding involved in protein folding IEA
Inferred from Electronic Annotation
more info
 
unfolded protein binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
binding of sperm to zona pellucida IEA
Inferred from Electronic Annotation
more info
 
endoplasmic reticulum unfolded protein response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein folding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein-containing complex assembly IEA
Inferred from Electronic Annotation
more info
 
single fertilization TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
endoplasmic reticulum IDA
Inferred from Direct Assay
more info
 
endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
nuclear envelope IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
calmegin
Names
testis tissue sperm-binding protein Li 79P

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_001130675.1NP_001124147.1  calmegin precursor

    See identical proteins and their annotated locations for NP_001124147.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an extra exon in the 5' UTR, compared to variant 1.
    Source sequence(s)
    AL045602, BC028357, D86322, DC396076
    Consensus CDS
    CCDS3751.1
    UniProtKB/Swiss-Prot
    O14967
    UniProtKB/TrEMBL
    A0A140VKG2
    Related
    ENSP00000392782.1, ENST00000414773.5
    Conserved Domains (1) summary
    pfam00262
    Location:62429
    Calreticulin; Calreticulin family
  2. NM_004362.3NP_004353.1  calmegin precursor

    See identical proteins and their annotated locations for NP_004353.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) is the shorter transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    BC028357, D86322, DC396076
    Consensus CDS
    CCDS3751.1
    UniProtKB/Swiss-Prot
    O14967
    UniProtKB/TrEMBL
    A0A140VKG2
    Related
    ENSP00000326699.5, ENST00000325617.10
    Conserved Domains (1) summary
    pfam00262
    Location:62429
    Calreticulin; Calreticulin family

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_000004.12 Reference GRCh38.p13 Primary Assembly

    Range
    140388453..140427661 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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