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    Hmcn2 hemicentin 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 686132, updated on 5-Mar-2024

    Summary

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    Symbol
    Hmcn2provided by RGD
    Full Name
    hemicentin 2provided by RGD
    Primary source
    RGD:1585467
    See related
    Ensembl: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 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, Apr 2022]
    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
    • 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
      ENSRNOP00000080634.1
      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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