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Aliases for CHRD Gene

Aliases for CHRD Gene

External Ids for CHRD Gene

Previous GeneCards Identifiers for CHRD Gene

  • GC03P180570
  • GC03P185091
  • GC03P185499
  • GC03P185419
  • GC03P185421
  • GC03P185580
  • GC03P184097
  • GC03P181483

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 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

Regulatory Elements for CHRD Gene

Enhancers for CHRD Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH03F184464 0.6 Ensembl ENCODE 18.4 +86.2 86194 2.7 HDGF KLF1 SREBF2 TAL1 ZNF644 ZNF335 FOSL1 ZNF197 MIER1 ZBTB11 CHRD LINC02054 THPO LINC01840 MAGEF1 FAM131A EIF4G1 EPHB3 LOC105374252
GH03F184531 0.4 FANTOM5 12.1 +151.7 151657 0.2 CREB3L1 ARID4B SIN3A DMAP1 YY1 ZNF143 KLF13 DEK SP3 SP5 CHRD THPO LINC01840 EPHB3 LINC02054 EIF4G1 SNORD66 FAM131A HTR3E HTR3D
GH03F184523 0.9 Ensembl ENCODE 11.8 +145.1 145129 2.8 PKNOX1 ARID4B SIN3A DMAP1 ZNF48 GLIS2 FOS PAF1 SP3 SP5 MAGEF1 LINC02054 CHRD THPO LINC01840 CLCN2 POLR2H EPHB3 FAM131A EIF4G1
GH03F184492 1.2 Ensembl ENCODE 11.7 +112.7 112728 1.6 ZNF585B MAX MYC NR2F2 EZH2 MAGEF1 CHRD THPO LINC01840 EPHB3 LOC105374252 LOC391600
GH03F184543 1 Ensembl ENCODE 11.6 +164.1 164143 0.7 SREBF2 ZNF76 SIN3A INSM2 ARID4B NFXL1 FEZF1 ZBTB40 ZNF2 RAD21 CHRD THPO MAGEF1 FAM131A EIF4G1 LINC01840 LINC01839
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around CHRD on UCSC Golden Path with GeneCards custom track

Promoters for CHRD Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001381319 227 1401 TFAP4 SUZ12 SAP130 ZMYM3 KLF17 POLR2A CREM EZH2 ZBTB10 ZNF263
ENSR00001855690 1427 201 RNF2 SUZ12 CBX2 EZH2

Genomic Location for CHRD Gene

Chromosome:
3
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

Genes around CHRD on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CHRD Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CHRD Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CHRD Gene

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

Post-translational modifications for CHRD Gene

  • Cleaved by tolloid proteases; cleavage participates in dorsoventral patterning during early development.
  • Glycosylation at Asn 217, Asn 351, Asn 365, and Asn 434
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for CHRD Gene

Domains & Families for CHRD Gene

Protein Domains for CHRD Gene

Suggested Antigen Peptide Sequences for CHRD Gene

Graphical View of Domain Structure for InterPro Entry

Q9H2X0

UniProtKB/Swiss-Prot:

CHRD_HUMAN :
  • Contains 4 CHRD domains.
  • Belongs to the chordin family.
Domain:
  • Contains 4 CHRD domains.
  • Contains 4 VWFC domains.
Family:
  • Belongs to the chordin family.
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

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

Animal Models for CHRD Gene

MGI Knock Outs for CHRD:

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets 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 5
mitochondrion 2
plasma membrane 2
lysosome 1
nucleus 1
vacuole 1

Gene Ontology (GO) - Cellular Components for CHRD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005615 extracellular space NAS 16449796
genes like me logo Genes that share ontologies with CHRD: view

Pathways & Interactions for CHRD Gene

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

Pathways by source for CHRD Gene

1 GeneTex pathway 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

No data available for SIGNOR curated interactions for CHRD Gene

Drugs & Compounds for CHRD Gene

(2) Drugs for CHRD Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(5) Additional Compounds for CHRD Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CHRD: view

Transcripts for CHRD Gene

Unigene Clusters for CHRD Gene

Chordin:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

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 (x8.9), Brain - Cerebellum (x5.2), and Brain - Cerebellar Hemisphere (x4.7).

Protein differential expression in normal tissues from HIPED for CHRD Gene

This gene is overexpressed in Amniocyte (55.9) and Peripheral blood mononuclear cells (10.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for CHRD Gene



Protein tissue co-expression partners for CHRD Gene

NURSA nuclear receptor signaling pathways regulating expression of CHRD Gene:

CHRD

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 expression patterns with CHRD: view

Primer Products

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 34 35
  • 99.33 (n)
dog
(Canis familiaris)
Mammalia CHRD 34 35
  • 90.46 (n)
cow
(Bos Taurus)
Mammalia CHRD 34 35
  • 89.23 (n)
mouse
(Mus musculus)
Mammalia Chrd 34 16 35
  • 85.64 (n)
rat
(Rattus norvegicus)
Mammalia Chrd 34
  • 84.81 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia CHRD 35
  • 69 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CHRD 35
  • 33 (a)
OneToOne
chicken
(Gallus gallus)
Aves CHRD 34 35
  • 64.32 (n)
lizard
(Anolis carolinensis)
Reptilia CHRD 35
  • 51 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia chrd 34
  • 59.02 (n)
Str.2204 34
African clawed frog
(Xenopus laevis)
Amphibia LOC398045 34
zebrafish
(Danio rerio)
Actinopterygii chd 34 35
  • 56.38 (n)
fruit fly
(Drosophila melanogaster)
Insecta sog 36 34 35
  • 44.92 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000472 34
  • 38.9 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 29 (a)
OneToOne
Species where no ortholog for CHRD was found in the sources mined by GeneCards:
  • 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

(1) 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
rs145871696 Likely benign 184,383,572(+) GGAGA(C/G)CAAGC nc-transcript-variant, reference, missense
rs111415079 -- 184,381,056(+) GAGTA(C/T)TATTA intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs111489170 -- 184,381,008(+) GTTTC(A/G/T)TTCCC intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs111621108 -- 184,381,168(+) ATCCT(G/T)GCCTG intron-variant, upstream-variant-2KB
rs111921981 -- 184,387,430(+) ACCCC(A/G)TTGTG intron-variant, reference, missense

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

Variant ID Type Subtype PubMed ID
dgv2651n106 CNV deletion 24896259
esv2422400 CNV duplication 17116639
esv25970 CNV loss 19812545
nsv511206 CNV gain 21212237
nsv518580 CNV loss 19592680
nsv592667 CNV loss 21841781
nsv829813 CNV loss 17160897

Variation tolerance for CHRD Gene

Residual Variation Intolerance Score: 71.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.74; 86.62% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CHRD Gene

Human Gene Mutation Database (HGMD)
CHRD
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CHRD

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CHRD Gene

Disorders for CHRD Gene

Relevant External Links for CHRD

Genetic Association Database (GAD)
CHRD
Human Genome Epidemiology (HuGE) Navigator
CHRD
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CHRD

No disorders were found for CHRD Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CHRD Gene

Publications for CHRD Gene

  1. 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 22 64
  2. 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 22 64
  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 22 64
  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. (PMID: 20628086) Bailey S.D. … Anand S. (Diabetes Care 2010) 3 46 64
  5. Regional and cellular localisation of BMPs and their inhibitors' expression in human fractures. (PMID: 19023570) Kwong F.N. … Freemont A.J. (Int Orthop 2009) 3 22 64

Products for CHRD Gene

Sources for CHRD Gene

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