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Hmcn2 hemicentin 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 686132, updated on 2-Nov-2024

Summary

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Symbol
Hmcn2provided by RGD
Full Name
hemicentin 2provided by RGD
Primary source
RGD:1585467
See related
EnsemblRapid:ENSRNOG00000064166 AllianceGenome:RGD:1585467
Gene type
protein coding
RefSeq status
MODEL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable calcium ion binding activity. Predicted to be located in several cellular components, including basement membrane; cell cortex; and extracellular region. Orthologous to human HMCN2 (hemicentin 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Uterus (RPKM 166.3), Muscle (RPKM 81.8) and 2 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Hmcn2 in Genome Data Viewer
Location:
3p12
Exon count:
98
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (34986246..35136047)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (14588353..14738320)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (10384873..10536529, complement)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene ATP synthase F(0) complex subunit C2, mitochondrial-like Neighboring gene neuronal calcium sensor 1 Neighboring gene uncharacterized LOC134486068 Neighboring gene small nucleolar RNA SNORA26 Neighboring gene argininosuccinate synthase 1 Neighboring gene far upstream element binding protein 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Hemicentins assemble on diverse epithelia in the mouse. Xu X, et al. J Histochem Cytochem, 2007 Feb. PMID 17015624
  2. Extracellular matrix remodelling in response to venous hypertension: proteomics of human varicose veins. Barallobre-Barreiro J, et al. Cardiovasc Res, 2016 Jun 1. PMID 27068509, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in basement membrane ISO
Inferred from Sequence Orthology
more info
  
located_in cell cortex ISO
Inferred from Sequence Orthology
more info
  
located_in cell junction ISO
Inferred from Sequence Orthology
more info
  
located_in extracellular region ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
hemicentin 2; hemicentin-2

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086021.1 Reference GRCr8

    Range
    34986246..35136047
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039106171.2 → XP_038962099.1  hemicentin-2

    UniProtKB/TrEMBL
    A0A8I5ZQ55
    Related
    ENSRNOP00000080634.2, ENSRNOT00000111278.2
    Conserved Domains (12) summary
    smart00408
    Location:4242 → 4304
    IGc2; Immunoglobulin C-2 Type
    smart00179
    Location:4879 → 4918
    EGF_CA; Calcium-binding EGF-like domain
    smart00409
    Location:525 → 605
    IG; Immunoglobulin
    smart00410
    Location:707 → 783
    IG_like; Immunoglobulin like
    cd00198
    Location:38 → 196
    vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
    cd00255
    Location:4406 → 4622
    nidG2; Nidogen, G2 domain; Nidogen is an important component of the basement membrane, an extracellular sheet-like matrix. Nidogen is a multifunctional protein that interacts with many other basement membrane proteins, like collagen, perlecan, lamin, and has a ...
    pfam07645
    Location:4684 → 4727
    EGF_CA; Calcium-binding EGF domain
    pfam07679
    Location:2459 → 2537
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:3219 → 3298
    Ig_3; Immunoglobulin domain
    pfam14670
    Location:4647 → 4682
    FXa_inhibition; Coagulation Factor Xa inhibitory site
    cd00096
    Location:3790 → 3855
    Ig; Immunoglobulin domain
    cl11960
    Location:4319 → 4404
    Ig; Immunoglobulin domain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001109494.1: Suppressed sequence

    Description
    NM_001109494.1: This RefSeq was temporarily suppressed because the CDS was partial.
Nucleotide Protein Strain
Heading Accession and Version

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