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CHRD Gene

protein-coding   GIFtS: 59
GCID: GC03P184097

Chordin

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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
chordin1 2

External Ids:    HGNC: 19491   Entrez Gene: 86462   Ensembl: ENSG000000905397   OMIM: 6034755   UniProtKB: Q9H2X03   

Export aliases for CHRD gene to outside databases

Previous GC identifers: GC03P180570 GC03P185091 GC03P185499 GC03P185419 GC03P185421 GC03P185580 GC03P181483


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for CHRD Gene:
This gene encodes a secreted protein that dorsalizes early vertebrate embryonic tissues by binding to ventralizing
TGF-beta-like bone morphogenetic proteins and sequestering them in latent complexes. The encoded protein may also
have roles in organogenesis and during adulthood. Multiple transcript variants encoding distinct isoforms have
been identified for this gene. Other alternative splice variants have been described but their full length
sequence has not been determined. (provided by RefSeq, Jul 2008)

GeneCards Summary for CHRD Gene:
CHRD (chordin) is a protein-coding gene. GO annotations related to this gene include heparin binding and syndecan binding. An important paralog of this gene is CHRDL1.

UniProtKB/Swiss-Prot: CHRD_HUMAN, Q9H2X0
Function: Dorsalizing factor. Key developmental protein that dorsalizes early vertebrate embryonic tissues by
binding to ventralizing TGF-beta family bone morphogenetic proteins (BMPs) and sequestering them in latent
complexes (By similarity)




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000003.11  NT_005612.17  NC_018914.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the CHRD gene promoter:
         AP-1   STAT3   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for CHRD

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CHRD


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 3q27   Ensembl cytogenetic band:  3q27.1   HGNC cytogenetic band: 3q27

CHRD Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CHRD gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03P184097:  view genomic region     (about GC identifiers)

Start:
184,097,861 bp from pter      End:
184,108,524 bp from pter
Size:
10,664 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: CHRD_HUMAN, Q9H2X0 (See protein sequence)
Recommended Name: Chordin precursor  
Size: 955 amino acids; 102032 Da
Subunit: Interacts with TWSG1 and/or BMP4 (By similarity)
Secondary accessions: O95254 Q2M1I8 Q6UW83 Q9H2D3 Q9H2W8 Q9H2W9 Q9P0Z2 Q9P0Z3 Q9P0Z4 Q9P0Z5
Alternative splicing: 5 isoforms:  Q9H2X0-1   Q9H2X0-2   Q9H2X0-3   Q9H2X0-4   Q9H2X0-5   (May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay)

Explore the universe of human proteins at neXtProt for CHRD: NX_Q9H2X0

Explore proteomics data for CHRD at MOPED

Post-translational modifications: 

  • Cleaved by tolloid proteases; cleavage participates in dorsoventral patterning during early development (By
    similarity)1
  • Glycosylation2 at Asn217, Asn351, Asn365, Asn434

  • See CHRD Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_003732.2  
    ENSEMBL proteins: 
     ENSP00000348930   ENSP00000204604   ENSP00000408624   ENSP00000392794   ENSP00000408972  
     ENSP00000334036   ENSP00000308559   ENSP00000442948  

    CHRD Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    OriGene Protein Over-expression Lysate for CHRD
    OriGene Custom MassSpec
    OriGene Custom Protein Services for CHRD
    GenScript Custom Purified and Recombinant Proteins Services for CHRD
    Novus Biologicals CHRD Lysate
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for CHRD

     
    Search eBioscience for Proteins for CHRD 

    CHRD Antibody Products:

    Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    R&D Systems Antibodies for CHRD (Chordin)
    Browse OriGene Antibodies
    OriGene Custom Antibody Services for CHRD
    Novus Biologicals CHRD Antibodies
    Abcam antibodies for CHRD
    Cloud-Clone Corp. Antibodies for CHRD
    ThermoFisher Antibodies for CHRD
    LSBio Antibodies in human, mouse, rat for CHRD

    CHRD Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for CHRD
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for CHRD
    Cloud-Clone Corp. CLIAs for CHRD
    Search eBioscience for ELISAs for CHRD 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    3 InterPro protein domains:
     IPR016353 Chordin
     IPR010895 CHRD
     IPR001007 VWF_C

    Graphical View of Domain Structure for InterPro Entry Q9H2X0

    ProtoNet protein and cluster: Q9H2X0

    2 Blocks protein domains:
    IPB001007 von Willebrand factor
    IPB010895 CHRD


    UniProtKB/Swiss-Prot: CHRD_HUMAN, Q9H2X0
    Similarity: Belongs to the chordin family
    Similarity: Contains 4 CHRD domains
    Similarity: Contains 4 VWFC domains


    Find genes that share domains with CHRD           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CHRD_HUMAN, Q9H2X0
    Function: Dorsalizing factor. Key developmental protein that dorsalizes early vertebrate embryonic tissues by
    binding to ventralizing TGF-beta family bone morphogenetic proteins (BMPs) and sequestering them in latent
    complexes (By similarity)

         Genatlas biochemistry entry for CHRD:
    chordin,developmental protein,highly conserved,inhibiting the ventralizing activity of bone morphogenetic
    proteins,active during gastrulation,expressed in fetal and adult liver and cerebellum

         Summary: 
    During embryonic development, CHRD as signaling molecule is secreted from the following cells:
                
    Primitive Streak: Prechordal Plate Cells (Prechordal Plate), Primitive Node Cells (Primitive Node)
    Epiblast: Early-Gastrula Organizer (Epiblast)

    It affects the following cells:
    Ectoderm: Intraembryonic Ectoderm Cells (Ectoderm)
    Neural Ectoderm: Intraembryonic Neural Ectoderm Cells (Neural Plate)

         Gene Ontology (GO): 4 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI--
    GO:0008201heparin binding IEA--
    GO:0019955cytokine binding NAS16449796
    GO:0045545syndecan binding IEA--
         
    Find genes that share ontologies with CHRD           About GenesLikeMe


    Phenotypes:
         Selected MGI mutant phenotypes (inferred from 2 alleles(MGI details for Chrd) (see all 22):
     behavior/neurological  cardiovascular system  cellular  craniofacial  digestive/alimentary 
     embryogenesis  endocrine/exocrine gland  growth/size/body  hearing/vestibular/ear  hematopoietic system 
     homeostasis/metabolism  immune system  mortality/aging  muscle  nervous system 

    Find genes that share phenotypes with CHRD           About GenesLikeMe

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CHRD
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for CHRD

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for CHRD
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for CHRD

    miRNA
    Products:
        
    Block miRNA regulation of human, mouse, rat CHRD using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate CHRD (see all 26):
    hsa-let-7d hsa-miR-575 hsa-let-7a-2* hsa-miR-486-3p hsa-let-7c hsa-miR-515-5p hsa-let-7g hsa-miR-124
    SwitchGear 3'UTR luciferase reporter plasmidCHRD 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for CHRD
    Predesigned siRNA for gene silencing in human, mouse, rat CHRD

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for CHRD

    Clone
    Products:
         
    OriGene clones in human, mouse for CHRD (see all 6)
    OriGene ORF clones in mouse, rat for CHRD
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: CHRD (NM_003741)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CHRD
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CHRD

    Cell Line
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    Browse ESI BIO Cell Lines and PureStem Progenitors for CHRD 
    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CHRD


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    CHRD_HUMAN, Q9H2X0: Secreted (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    extracellular4
    nucleus2
    plasma membrane2
    lysosome1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005615extracellular space NAS16449796

    Find genes that share ontologies with CHRD           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for CHRD About    
    See pathways by source

    SuperPathContained pathways About
    1Signaling by BMP
    BMP receptor signaling0.31
    2TGF-beta signaling pathway (KEGG)
    TGF-beta signaling pathway


    Find genes that share SuperPaths with CHRD           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 BioSystems Pathway for CHRD
        BMP receptor signaling


    1 Kegg Pathway  (Kegg details for CHRD):
        TGF-beta signaling pathway

        Pathway & Disease-focused RT2 Profiler PCR Arrays including CHRD: 
              Osteogenesis in human mouse rat
              TGFB/BMP Signaling Pathway in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for CHRD

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for CHRD (Q9H2X01, 2, 3 ENSP000002046044) via UniProtKB, MINT, STRING, and/or I2D (see all 48)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    BMP1P134972, 3, ENSP000003057144MINT-7386098 I2D: score=4 STRING: ENSP00000305714
    ATN1P542592, 3, ENSP000003490764MINT-2865426 MINT-2865407 I2D: score=3 STRING: ENSP00000349076
    TLL1O438973, ENSP000000612404I2D: score=4 STRING: ENSP00000061240
    TWSG1Q9GZX93, ENSP000002621204I2D: score=3 STRING: ENSP00000262120
    ABL1P005193, ENSP000003614234I2D: score=1 STRING: ENSP00000361423
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 16):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001501skeletal system development TAS9782094
    GO:0001649osteoblast differentiation IEA--
    GO:0001702gastrulation with mouth forming second IEA--
    GO:0001707mesoderm formation IEA--
    GO:0002053positive regulation of mesenchymal cell proliferation IMP18533030

    Find genes that share ontologies with CHRD           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for CHRD

    7 Novoseek inferred chemical compound relationships for CHRD gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    admp 87.4 3 16933975 (1), 10640703 (1), 19733655 (1)
    astacin 66.5 1 19723501 (1)
    procollagen 59.3 14 15381708 (4), 18542833 (3), 15817489 (2), 10952893 (1) (see all 5)
    oligonucleotide 0 1 12629212 (1)
    zinc 0 1 9435279 (1)
    retinoic acid 0 2 12975341 (1), 8850563 (1)
    cysteine 0 1 15082551 (1)



    Find genes that share compounds with CHRD           About GenesLikeMe



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for CHRD gene (3 alternative transcripts): 
    NM_003741.2  NM_177978.1  NM_177979.1  

    Unigene Cluster for CHRD:

    Chordin
    Hs.166186  [show with all ESTs]
    Unigene Representative Sequence: AF209930
    Selected Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 19):
    ENST00000356534 ENST00000204604(uc003fov.3 uc003fox.3) ENST00000448472(uc003fow.3)
    ENST00000420973(uc003foy.3) ENST00000460627(uc011brr.2) ENST00000450923
    ENST00000348986(uc010hyc.3) ENST00000470150 ENST00000496527 ENST00000459711
    ENST00000485883 ENST00000482805 ENST00000486066 ENST00000461684 ENST00000482014
    ENST00000461120 ENST00000464833 ENST00000310236
    miRNA
    Products:
         
    Block miRNA regulation of human, mouse, rat CHRD using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate CHRD (see all 26):
    hsa-let-7d hsa-miR-575 hsa-let-7a-2* hsa-miR-486-3p hsa-let-7c hsa-miR-515-5p hsa-let-7g hsa-miR-124
    SwitchGear 3'UTR luciferase reporter plasmidCHRD 3' UTR sequence
    Inhib. RNA
    Products:
         
    OriGene RNAi products in human, mouse, rat for CHRD
    Predesigned siRNA for gene silencing in human, mouse, rat CHRD
    Clone
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    OriGene clones in human, mouse for CHRD (see all 6)
    OriGene ORF clones in mouse, rat for CHRD
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: CHRD (NM_003741)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CHRD
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CHRD
    Primer
    Products:
        
    OriGene qSTAR qPCR primer pairs in human, mouse for CHRD
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CHRD
      QuantiTect SYBR Green Assays in human, mouse, rat CHRD
      QuantiFast Probe-based Assays in human, mouse, rat CHRD

    Additional mRNA sequence: 

    AF038198.1 AF076612.1 AF209928.1 AF209930.1 AF283325.1 AK293456.1 AK295632.1 AK296316.1 
    AK300213.1 AK300476.1 AY358926.1 BC029879.1 BC112345.1 BC114923.1 

    6 DOTS entries:

    DT.95371416  DT.40214912  DT.120884963  DT.100765134  DT.100765131  DT.120884951 

    Selected AceView cDNA sequences (see all 51):

    AF209928 AI370796 AF283325 AV647036 BQ778474 CF552280 BE872081 BC029879 
    NM_177978 NM_177979 AF209930 CB216920 BM023317 BQ006677 AF209929 Z41391 
    CK904519 BQ776386 NM_003741 AF038198 AL134738 AF076612 BI252168 AV696158 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for CHRD (see all 14)    About this scheme

    ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3a · 3b · 3c ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b · 6c ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b · 10c ^ 11a · 11b ^ 12 ^ 13 ^
    SP1:                                -           -                 -                       -           -     -                       -     -                     
    SP2:                                -     -     -                 -                       -           -     -                       -                           
    SP3:                                -     -     -                 -                       -           -     -                       -                           
    SP4:                                -     -     -                 -                       -           -     -                       -     -                     
    SP5:                                -     -     -                 -                       -           -     -                                                   

    ExUns: 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20a · 20b ^ 21 ^ 22 ^ 23 ^ 24 ^ 25a · 25b
    SP1:                                            -                                       
    SP2:                                            -                                       
    SP3:                                            -                                       
    SP4:                                            -                                       
    SP5:                                            -     -                                 


    ECgene alternative splicing isoforms for CHRD

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    CHRD expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CAGGCTGATG
    CHRD Expression
    About this image


    CHRD expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 7) fully expand
     
     Primitive Streak (Early Embryonic Tissues)    fully expand to see all 6 entries
             Primitive Streak Cells Anterior Primitive Streak
     
     Epiblast (Early Embryo)    fully expand to see all 4 entries
             Early-Gastrula Organizer Epiblast
     
     Neural Tube (Nervous System)    fully expand to see all 3 entries
             Metencephalon
     
     Brain (Nervous System)    fully expand to see all 3 entries
             Cerebral Cortex
     
     Cartilage (Muscoskeletal System)    fully expand to see all 2 entries
             Notochord Cells Notochord
    CHRD Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CHRD Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.166186

    UniProtKB/Swiss-Prot: CHRD_HUMAN, Q9H2X0
    Tissue specificity: Expressed at the highest level in liver

        Pathway & Disease-focused RT2 Profiler PCR Arrays including CHRD: 
              Osteogenesis in human mouse rat
              TGFB/BMP Signaling Pathway in human mouse rat

    Primer
    Products:
    OriGene qSTAR qPCR primer pairs in human, mouse for CHRD
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CHRD
    QuantiTect SYBR Green Assays in human, mouse, rat CHRD
    QuantiFast Probe-based Assays in human, mouse, rat CHRD
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CHRD

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of animals.

    Orthologs for CHRD gene from Selected species (see all 15)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Chrd1 , 5 chordin1, 5 85.64(n)1
    87.12(a)1
      16 (12.51 cM)5
    126671  NM_001278041.11  NP_001264970.11 
     207331275 
    chicken
    (Gallus gallus)
    Aves CHRD1 chordin 64.32(n)
    57.95(a)
      395828  NM_204980.1  NP_990311.1 
    lizard
    (Anolis carolinensis)
    Reptilia CHRD6
    chordin
    51(a)
    1 ↔ 1
    GL343504.1(367719-435343)
    African clawed frog
    (Xenopus laevis)
    Amphibia LOC3980452 chordin 73.03(n)    L35764.1 
    zebrafish
    (Danio rerio)
    Actinopterygii chd2 chordin 74.44(n)   30161  AF034606.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta sog1 , 3 terminal region determination growth
    factor3
    short gastrulation1
    29(a)3
    44.92(n)1
    31.69(a)1
      1 13E13
    324981  NM_001272649.11  NP_001259578.11 


    ENSEMBL Gene Tree for CHRD (if available)
    TreeFam Gene Tree for CHRD (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CHRD gene
    CHRDL12  CHRDL22  
    1 SIMAP similar gene for CHRD using alignment to 3 protein entries:     CHRD_HUMAN (see all proteins):
    FLJ00220

    Find genes that share paralogs with CHRD           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for CHRD (see all 354)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1405599641,2
    F--184098526(+) TGGCAC/TCCGGA 2 H syn11Minor allele frequency- T:0.00NA 3844
    rs98801981,2
    C--184098559(+) ATGCGC/TTGCGT 2 R syn12Minor allele frequency- T:0.00NA 4
    rs1905222801,2
    --184098562(+) CGCTGC/TGTGCT 2 C syn10--------
    rs8856501,2
    C,A--184098647(-) ACTCCG/AACGCC 1 -- int14Minor allele frequency- A:0.14CSA WA NA EA 360
    rs1120918241,2
    C,F--184098711(+) CTGGTG/AGAGGA 1 -- int12Minor allele frequency- A:0.04WA 120
    rs1508927721,2
    --184098714(+) GTGGAA/GGAAGG 1 -- int10--------
    rs1114891701,2
    C--184098796(+) GTTTCA/G/TTTCCC 1 -- int11CSA 2
    rs8856581,2
    C--184098954(-) GGCAAG/AGATGT 1 -- int12Minor allele frequency- A:0.00NA 4
    rs1116211081,2
    C,F--184098956(+) ATCCTG/TGCCTG 1 -- int11Minor allele frequency- T:0.00CSA 1
    rs791039461,2
    C--184098994(+) ACTCAC/GTTGGG 1 -- int10--------

    HapMap Linkage Disequilibrium report for CHRD (184097861 - 184108524 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 6 variations for CHRD:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2422400CNV Duplication17116639
    nsv878060CNV Loss21882294
    nsv518580CNV Loss19592680
    esv25970CNV Loss19812545
    nsv829813CNV Loss17160897
    nsv511206CNV Gain21212237

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing CHRD
    DNA2.0 Custom Variant and Variant Library Synthesis for CHRD

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 603475    OMIM disorders: --

    1 disease from the University of Copenhagen DISEASES database for CHRD:
    Holoprosencephaly

    Find genes that share disorders with CHRD           About GenesLikeMe

    2 Novoseek inferred disease relationships for CHRD gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tumors 1.29 4 16449796 (2)
    cancer 0.921 6 16449796 (3)

    Genetic Association Database (GAD): CHRD
    Human Genome Epidemiology (HuGE) Navigator: CHRD (6 documents)

    Export disorders for CHRD gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for CHRD gene, integrated from 10 sources (see all 175):
    (articles sorted by number of sources associating them with CHRD)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Coding sequence and expression patterns of mouse chordin and mapping of the cognate mouse chrd and human CHRD genes. (PubMed id 9782094)1, 2, 3, 9 Pappano W.N....Greenspan D.S. (Genomics 1998)
    2. The human chordin gene encodes several differentially expressed spliced variants with distinct BMP opposing activities. (PubMed id 11472837)1, 2, 3, 9 Millet C.... Francois V. (Mech. Dev. 2001)
    3. BMP-binding modules in chordin: a model for signalling regulation in the extracellular space. (PubMed id 10648240)1, 2, 9 Larrain J....De Robertis E.M. (Development 2000)
    4. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (Diabetes Care 2010)
    5. High-density association study of 383 candidate genes for volumetric BMD at the femoral neck and lumbar spine among older men. (PubMed id 19453261)1, 4 Yerges L.M....Zmuda J.M. (J. Bone Miner. Res. 2009)
    6. An unappreciated role for RNA surveillance. (PubMed id 14759258)1, 2 Hillman R.T.... Brenner S.E. (Genome Biol. 2004)
    7. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    8. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2 Clark H.F.... Gray A.M. (Genome Res. 2003)
    9. Chordin is underexpressed in ovarian tumors and reduces tumor cell motility. (PubMed id 16449796)1, 9 Moll F....FranAsois V. (FASEB J. 2006)
    10. Chordin knockdown enhances the osteogenic differentiation of human mesenchymal stem cells. (PubMed id 18533030)1, 9 Kwong F.N....Evans C.H. (amp 2008)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 8646 HGNC: 1949 AceView: CHRD Ensembl:ENSG00000090539 euGenes: HUgn8646
    ECgene: CHRD Kegg: 8646 H-InvDB: CHRD

    (According to HUGE)
    About This Section

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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
    About This Section

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    NameDescription
    PharmGKB entry for CHRD Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section

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    Patent Information for CHRD gene:
    Search GeneIP for patents involving CHRD

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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