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    Chrd chordin [ Mus musculus (house mouse) ]

    Gene ID: 12667, updated on 23-Sep-2017
    Official Symbol
    Chrdprovided by MGI
    Official Full Name
    chordinprovided by MGI
    Primary source
    MGI:MGI:1313268
    See related
    Ensembl:ENSMUSG00000006958 Vega:OTTMUSG00000021018
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Chd
    Orthologs
    Location:
    16 B1; 16 12.51 cM
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 16 NC_000082.6 (20733050..20742384)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 16 NC_000082.5 (20733200..20742457)

    Chromosome 16 - NC_000082.6Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 131, member A Neighboring gene chloride channel, voltage-sensitive 2 Neighboring gene polymerase (RNA) II (DNA directed) polypeptide H Neighboring gene thrombopoietin Neighboring gene 60S ribosomal protein L17 pseudogene Neighboring gene predicted gene 9536

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    • TGF-beta signaling pathway, organism-specific biosystem (from KEGG)
      TGF-beta signaling pathway, organism-specific biosystemThe transforming growth factor-beta (TGF-beta) family members, which include TGF-betas, activins and bone morphogenetic proteins (BMPs), are structurally related secreted cytokines found in species r...
    • TGF-beta signaling pathway, conserved biosystem (from KEGG)
      TGF-beta signaling pathway, conserved biosystemThe transforming growth factor-beta (TGF-beta) family members, which include TGF-betas, activins and bone morphogenetic proteins (BMPs), are structurally related secreted cytokines found in species r...

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    heparin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    syndecan binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    BMP signaling pathway involved in spinal cord dorsal/ventral patterning ISO
    Inferred from Sequence Orthology
    more info
     
    central nervous system development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    dorsal/ventral pattern formation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    forebrain development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    gastrulation with mouth forming second IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    mesoderm formation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of BMP signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of BMP signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of osteoblast differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of osteoblast differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    osteoblast differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    pattern specification process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of cell adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of mesenchymal cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    skeletal system development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    extracellular region IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 

    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_001278041.1NP_001264970.1  chordin isoform 2 precursor

      See identical proteins and their annotated locations for NP_001264970.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame acceptor splice site in the 5' coding region compared to variant 1, which results in a longer isoform (2) containing an internal protein segment not found in isoform 1.
      Source sequence(s)
      AF069501, AI838093, BC145696
      UniProtKB/Swiss-Prot
      Q9Z0E2
      UniProtKB/TrEMBL
      A6H5Z6
      Conserved Domains (3) summary
      smart00214
      Location:801867
      VWC; von Willebrand factor (vWF) type C domain
      smart00754
      Location:422539
      CHRD; A domain in the BMP inhibitor chordin and in microbial proteins
      cl17735
      Location:73147
      VWC; von Willebrand factor type C domain
    2. NM_001354995.1NP_001341924.1  chordin isoform 3

      Status: VALIDATED

      Source sequence(s)
      CT010490
      Conserved Domains (4) summary
      smart00214
      Location:300366
      VWC; von Willebrand factor (vWF) type C domain
      smart00754
      Location:51163
      CHRD; A domain in the BMP inhibitor chordin and in microbial proteins
      cl06473
      Location:238
      CHRD; CHRD domain
      cl17735
      Location:388448
      VWC; von Willebrand factor type C domain
    3. NM_001354996.1NP_001341925.1  chordin isoform 4 precursor

      Status: VALIDATED

      Source sequence(s)
      CT010490
      Conserved Domains (3) summary
      smart00214
      Location:779845
      VWC; von Willebrand factor (vWF) type C domain
      smart00754
      Location:400517
      CHRD; A domain in the BMP inhibitor chordin and in microbial proteins
      cl17735
      Location:51125
      VWC; von Willebrand factor type C domain
    4. NM_009893.2NP_034023.1  chordin isoform 1 precursor

      See identical proteins and their annotated locations for NP_034023.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the predominant transcript and encodes the shorter isoform (1).
      Source sequence(s)
      AF069501, AI838093
      Consensus CDS
      CCDS28059.1
      UniProtKB/Swiss-Prot
      Q9Z0E2
      Related
      ENSMUSP00000007171.6, OTTMUSP00000023072, ENSMUST00000007171.12, OTTMUST00000049687
      Conserved Domains (3) summary
      smart00214
      Location:779845
      VWC; von Willebrand factor (vWF) type C domain
      smart00754
      Location:400517
      CHRD; A domain in the BMP inhibitor chordin and in microbial proteins
      cl17735
      Location:51125
      VWC; von Willebrand factor type C domain

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000082.6 Reference GRCm38.p4 C57BL/6J

      Range
      20733050..20742384
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011245814.2XP_011244116.1  chordin isoform X1

      Conserved Domains (3) summary
      smart00214
      Location:820886
      VWC; von Willebrand factor (vWF) type C domain
      smart00754
      Location:441558
      CHRD; A domain in the BMP inhibitor chordin and in microbial proteins
      cl17735
      Location:73147
      VWC; von Willebrand factor type C domain
    2. XM_011245815.2XP_011244117.1  chordin isoform X2

      Conserved Domains (3) summary
      smart00214
      Location:820886
      VWC; von Willebrand factor (vWF) type C domain
      smart00754
      Location:441558
      CHRD; A domain in the BMP inhibitor chordin and in microbial proteins
      cl17735
      Location:73147
      VWC; von Willebrand factor type C domain
    3. XM_011245816.2XP_011244118.1  chordin isoform X3

      Conserved Domains (3) summary
      smart00214
      Location:820886
      VWC; von Willebrand factor (vWF) type C domain
      smart00754
      Location:441558
      CHRD; A domain in the BMP inhibitor chordin and in microbial proteins
      cl17735
      Location:73147
      VWC; von Willebrand factor type C domain
    4. XM_006521745.3XP_006521808.1  chordin isoform X4

      Conserved Domains (3) summary
      smart00214
      Location:801867
      VWC; von Willebrand factor (vWF) type C domain
      smart00754
      Location:422539
      CHRD; A domain in the BMP inhibitor chordin and in microbial proteins
      cl17735
      Location:73147
      VWC; von Willebrand factor type C domain
    5. XM_011245817.2XP_011244119.1  chordin isoform X5

      Conserved Domains (3) summary
      smart00214
      Location:798864
      VWC; von Willebrand factor (vWF) type C domain
      smart00754
      Location:419536
      CHRD; A domain in the BMP inhibitor chordin and in microbial proteins
      cl17735
      Location:51125
      VWC; von Willebrand factor type C domain
    6. XM_006521747.3XP_006521810.1  chordin isoform X6

      Conserved Domains (3) summary
      smart00214
      Location:779845
      VWC; von Willebrand factor (vWF) type C domain
      smart00754
      Location:400517
      CHRD; A domain in the BMP inhibitor chordin and in microbial proteins
      cl17735
      Location:51125
      VWC; von Willebrand factor type C domain
    7. XM_017316859.1XP_017172348.1  chordin isoform X7

    8. XM_017316860.1XP_017172349.1  chordin isoform X8

    9. XM_017316861.1XP_017172350.1  chordin isoform X9

      Conserved Domains (4) summary
      smart00214
      Location:571637
      VWC; von Willebrand factor (vWF) type C domain
      smart00754
      Location:192309
      CHRD; A domain in the BMP inhibitor chordin and in microbial proteins
      cl06473
      Location:2465
      CHRD; CHRD domain
      cl17735
      Location:659719
      VWC; von Willebrand factor type C domain

    RNA

    1. XR_875721.2 RNA Sequence

      Related
      ENSMUST00000153299.7, OTTMUST00000049689
    2. XR_001781784.1 RNA Sequence

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