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Aliases for CHRD Gene

Aliases for CHRD Gene

  • Chordin 2 3

External Ids for CHRD Gene

Summaries for CHRD Gene

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. It has been suggested that this gene could be a candidate gene for Cornelia de Lange syndrome. Reduced expression of this gene results in enhanced bone regeneration. Alternative splicing results in multiple transcript variants. Other alternative splice variants have been described but their full length sequence has not been determined. [provided by RefSeq, Jan 2015]

GeneCards Summary for CHRD Gene

CHRD (Chordin) is a Protein Coding gene. Among its related pathways are TGF-beta signaling pathway (KEGG) and Signaling by BMP. GO annotations related to this gene include heparin binding and syndecan binding. An important paralog of this gene is CHRDL2.

UniProtKB/Swiss-Prot for CHRD Gene

  • 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).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CHRD Gene

Genomics for CHRD Gene

Genomic Location for CHRD Gene

Start:
184,380,073 bp from pter
End:
184,390,736 bp from pter
Size:
10,664 bases
Orientation:
Plus strand

Genomic View for CHRD Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CHRD Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CHRD Gene

Regulatory Elements for CHRD Gene

Transcription factor binding sites by QIAGEN in the CHRD gene promoter:

Proteins for CHRD Gene

  • Protein details for CHRD Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H2X0-CHRD_HUMAN
    Recommended name:
    Chordin
    Protein Accession:
    Q9H2X0
    Secondary Accessions:
    • O95254
    • Q2M1I8
    • Q6UW83
    • Q9H2D3
    • Q9H2W8
    • Q9H2W9
    • Q9P0Z2
    • Q9P0Z3
    • Q9P0Z4
    • Q9P0Z5

    Protein attributes for CHRD Gene

    Size:
    955 amino acids
    Molecular mass:
    102032 Da
    Quaternary structure:
    • Interacts with TWSG1 and/or BMP4.

    Alternative splice isoforms for CHRD Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CHRD Gene

Proteomics data for CHRD Gene at MOPED

Post-translational modifications for CHRD Gene

  • Cleaved by tolloid proteases; cleavage participates in dorsoventral patterning during early development.
  • Glycosylation at Asn217, Asn351, Asn365, and Asn434

No data available for DME Specific Peptides for CHRD Gene

Domains for CHRD Gene

Protein Domains for CHRD Gene

UniProtKB/Swiss-Prot:

CHRD_HUMAN
Domain:
  • Contains 4 CHRD domains.:
    • Q9H2X0
  • Contains 4 VWFC domains.:
    • Q9H2X0
Family:
  • Belongs to the chordin family.:
    • Q9H2X0
genes like me logo Genes that share domains with CHRD: view

No data available for Gene Families for CHRD Gene

Function for CHRD Gene

Molecular function for CHRD Gene

GENATLAS Biochemistry: chordin,developmental protein,highly conserved,inhibiting the ventralizing activity of bone morphogenetic proteins,active during gastrulation,expressed in fetal and adult liver and cerebellum
UniProtKB/Swiss-Prot 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).

LifeMap Function Summary for CHRD Gene

During embryonic development, CHRD as signaling molecule is secreted from the following cells
It affects the following cells:

Gene Ontology (GO) - Molecular Function for CHRD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21988832
GO:0008201 heparin binding IEA --
GO:0019955 cytokine binding NAS 16449796
GO:0045545 syndecan binding IEA --
genes like me logo Genes that share ontologies with CHRD: view
genes like me logo Genes that share phenotypes with CHRD: view

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for CHRD Gene

Localization for CHRD Gene

Subcellular locations from UniProtKB/Swiss-Prot for CHRD Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CHRD Gene COMPARTMENTS Subcellular localization image for CHRD gene
Compartment Confidence
extracellular 4
nucleus 2
plasma membrane 2
lysosome 1

Gene Ontology (GO) - Cellular Components for CHRD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space NAS 16449796
genes like me logo Genes that share ontologies with CHRD: view

Pathways for CHRD Gene

genes like me logo Genes that share pathways with CHRD: view

Pathways by source for CHRD Gene

1 BioSystems pathway for CHRD Gene
1 KEGG pathway for CHRD Gene

Gene Ontology (GO) - Biological Process for CHRD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001501 skeletal system development TAS 9782094
GO:0001649 osteoblast differentiation IEA --
GO:0001702 gastrulation with mouth forming second IEA --
GO:0001707 mesoderm formation IEA --
GO:0002053 positive regulation of mesenchymal cell proliferation IMP 18533030
genes like me logo Genes that share ontologies with CHRD: view

Compounds for CHRD Gene

(7) Novoseek inferred chemical compound relationships for CHRD Gene

Compound -log(P) Hits PubMed IDs
admp 87.4 3
astacin 66.5 1
procollagen 59.3 11
oligonucleotide 0 1
zinc 0 1
genes like me logo Genes that share compounds with CHRD: view

Transcripts for CHRD Gene

Unigene Clusters for CHRD Gene

Chordin:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for CHRD Gene

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: - - - - - - -
SP6: - - - - -
SP7: - - - - - -
SP8:
SP9: - - - - -
SP10: - -
SP11: - - - -
SP12: -
SP13:
SP14:

ExUns: 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20a · 20b ^ 21 ^ 22 ^ 23 ^ 24 ^ 25a · 25b
SP1: -
SP2: -
SP3: -
SP4: -
SP5: - -
SP6: - -
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:

Relevant External Links for CHRD Gene

GeneLoc Exon Structure for
CHRD
ECgene alternative splicing isoforms for
CHRD

Expression for CHRD Gene

mRNA expression in normal human tissues for CHRD Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CHRD Gene

This gene is overexpressed in Liver (8.9), Brain - Cerebellum (5.2), and Brain - Cerebellar Hemisphere (4.7).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for CHRD Gene

SOURCE GeneReport for Unigene cluster for CHRD Gene Hs.166186

mRNA Expression by UniProt/SwissProt for CHRD Gene

Q9H2X0-CHRD_HUMAN
Tissue specificity: Expressed at the highest level in liver
genes like me logo Genes that share expressions with CHRD: view

Orthologs for CHRD Gene

This gene was present in the common ancestor of animals.

Orthologs for CHRD Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CHRD 36
  • 99.33 (n)
  • 99.25 (a)
CHRD 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CHRD 36
  • 89.23 (n)
  • 91.21 (a)
CHRD 37
  • 89 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CHRD 36
  • 90.46 (n)
  • 92.71 (a)
CHRD 37
  • 91 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Chrd 36
  • 85.64 (n)
  • 87.12 (a)
Chrd 16
Chrd 37
  • 87 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CHRD 37
  • 33 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CHRD 37
  • 69 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Chrd 36
  • 84.81 (n)
  • 86.47 (a)
chicken
(Gallus gallus)
Aves CHRD 36
  • 64.32 (n)
  • 57.95 (a)
CHRD 37
  • 54 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CHRD 37
  • 51 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia LOC398045 36
tropical clawed frog
(Silurana tropicalis)
Amphibia chrd 36
  • 59.02 (n)
  • 54.33 (a)
Str.2204 36
zebrafish
(Danio rerio)
Actinopterygii chd 36
  • 56.38 (n)
  • 49.83 (a)
chd 37
  • 46 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000472 36
  • 38.9 (n)
  • 23.44 (a)
fruit fly
(Drosophila melanogaster)
Insecta sog 36
  • 44.92 (n)
  • 31.69 (a)
sog 37
  • 17 (a)
OneToMany
sog 38
  • 29 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 29 (a)
OneToOne
Species with no ortholog for CHRD:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CHRD Gene

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

Paralogs for CHRD Gene

Paralogs for CHRD Gene

Selected SIMAP similar genes for CHRD Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with CHRD: view

Variants for CHRD Gene

Sequence variations from dbSNP and Humsavar for CHRD Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type MAF
rs1881972 -- 184,388,429(-) ACGGA(C/T)GGATG intron-variant
rs2239856 -- 184,382,168(-) CTGAG(C/T)CTCAG intron-variant
rs2293606 -- 184,388,705(-) CCAAA(A/C)GGGGG synonymous-codon, reference, nc-transcript-variant
rs3064288 -- 184,388,238(-) ATGGA(-/TGGA)CGGAT intron-variant
rs3749226 -- 184,388,251(-) GGATG(A/G)ATGGA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CHRD Gene

Variant ID Type Subtype PubMed ID
nsv878060 CNV Loss 21882294
nsv829813 CNV Loss 17160897
esv2422400 CNV Duplication 17116639
esv25970 CNV Loss 19812545
nsv511206 CNV Gain 21212237
nsv518580 CNV Loss 19592680

Relevant External Links for CHRD Gene

HapMap Linkage Disequilibrium report
CHRD

Disorders for CHRD Gene

(1) University of Copenhagen DISEASES for CHRD Gene

(2) Novoseek inferred disease relationships for CHRD Gene

Disease -log(P) Hits PubMed IDs
tumors 1.29 2
cancer 0.921 3

Relevant External Links for CHRD

Genetic Association Database (GAD)
CHRD
Human Genome Epidemiology (HuGE) Navigator
CHRD
genes like me logo Genes that share disorders with CHRD: view

No data available for UniProtKB/Swiss-Prot for CHRD Gene

Publications for CHRD Gene

  1. Coding sequence and expression patterns of mouse chordin and mapping of the cognate mouse chrd and human CHRD genes. (PMID: 9782094) Pappano W.N. … Greenspan D.S. (Genomics 1998) 2 3 4 23
  2. The human chordin gene encodes several differentially expressed spliced variants with distinct BMP opposing activities. (PMID: 11472837) Millet C. … Francois V. (Mech. Dev. 2001) 2 3 4 23
  3. BMP-binding modules in chordin: a model for signalling regulation in the extracellular space. (PMID: 10648240) Larrain J. … De Robertis E.M. (Development 2000) 3 4 23
  4. Mammalian BMP-1/Tolloid-related metalloproteinases, including novel family member mammalian Tolloid-like 2, have differential enzymatic activities and distributions of expression relevant to patterning and skeletogenesis. (PMID: 10479448) Scott I.C. … Greenspan D.S. (Dev. Biol. 1999) 3 23
  5. Genomic organisation of the human chordin gene and mutation screening of candidate Cornelia de Lange syndrome genes. (PMID: 10480362) Smith M. … Strachan T. (Hum. Genet. 1999) 3 23

Products for CHRD Gene

Sources for CHRD Gene

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