Chrd chordin [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Chrdprovided by MGI
Official Full Name: chordinprovided by MGI
Primary source: MGI:MGI:1313268
See related: Ensembl:ENSMUSG00000006958 AllianceGenome:MGI:1313268
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
Summary: Enables heparin binding activity and syndecan binding activity. Acts upstream of or within several processes, including gastrulation; negative regulation of BMP signaling pathway; and negative regulation of osteoblast differentiation. Located in extracellular space. Is expressed in several structures, including alimentary system; branchial arch; central nervous system; genitourinary system; and skeletal system. Used to study DiGeorge syndrome and velocardiofacial syndrome. Orthologous to human CHRD (chordin). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in adrenal adult (RPKM 15.3), cortex adult (RPKM 13.6) and 23 other tissues See more
Orthologs: human all
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Genomic context

Location:: 16 B1; 16 12.51 cM

Exon count:: 24

Annotation release	Status	Assembly	Chr	Location
109	current	GRCm39 (GCF_000001635.27)	16	NC_000082.7 (20551492..20561134)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	16	NC_000082.6 (20731425..20742384)

Chromosome 16 - NC_000082.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Hippocampal overexpression of chordin protects against the chronic social defeat stress-induced depressive-like effects in mice.
Title: Hippocampal overexpression of chordin protects against the chronic social defeat stress-induced depressive-like effects in mice.
Chordin upregulated in primary satellite cell cultures and in regenerating muscles
Title: BMP signaling balances proliferation and differentiation of muscle satellite cell descendants.
The data indicate a role for CV2 and Chd in the establishment of the vertebral morphogenetic field through the long-range relocalization of Chd/BMP complexes.
Title: Crossveinless-2 is required for the relocalization of Chordin protein within the vertebral field in mouse embryos.
Data show that Brorin-like was predominantly expressed in the adult brain and embryonic neural tissues.
Title: A novel neural-specific BMP antagonist, Brorin-like, of the Chordin family.
chordin is a modifier for the craniofacial anomalies of Tbx1 mutations.
Title: Chordin is a modifier of tbx1 for the craniofacial malformations of 22q11 deletion syndrome phenotypes in mouse.
chordin has a role in venous and arterial patterning and the Bone Morphogenetic Protein pathway is necessary for the process
Title: Abnormal venous and arterial patterning in Chordin mutants.
products of Bmp1 and Tll1 are responsible for in vivo cleavage of Chordin in mammals
Title: Use of Bmp1/Tll1 doubly homozygous null mice and proteomics to identify and validate in vivo substrates of bone morphogenetic protein 1/tolloid-like metalloproteinases.
results suggest that twisted gastrulation and chordin are involved in osteoblast differentiation and mineralization by regulating BMP signaling
Title: Twisted gastrulation and chordin inhibit differentiation and mineralization in MC3T3-E1 osteoblast-like cells.
These results demonstrate that the chordin contributes to synaptic plasticity and learning likely through a presynaptic mechanism.
Title: Presynaptic contributions of chordin to hippocampal plasticity and spatial learning.
chordin antagonism of bone morphogenetic protein signaling and cellular uptake of chordin require cell-surface heparan sulfate proteoglycans
Title: Cell-surface heparan sulfate proteoglycans potentiate chordin antagonism of bone morphogenetic protein signaling and are necessary for cellular uptake of chordin.

Submit: New GeneRIF Correction See all GeneRIFs (12)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (2) 1 citation

General gene information

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Markers

Chrd (e-PCR), detects polymorphism
- UniSTS:141338

Chrd (e-PCR), detects polymorphism
- UniSTS:234037

MARC_16893-16894:1020710585:1 (e-PCR)
- UniSTS:268146

Chrd (e-PCR), detects polymorphism
- UniSTS:265415

Homology

Homologs of the Chrd gene: The Chrd gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, rat, chicken, zebrafish, fruit fly, mosquito, and frog.
Orthologs from Annotation Pipeline: 465 organisms have orthologs with human gene Chrd
Orthologs

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables BMP binding	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables BMP binding	IDA Inferred from Direct Assay more info	PubMed
enables heparan sulfate proteoglycan binding	IDA Inferred from Direct Assay more info	PubMed
enables heparin binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables syndecan binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in BMP signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in BMP signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
involved_in BMP signaling pathway involved in heart development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in BMP signaling pathway involved in spinal cord dorsal/ventral patterning	ISO Inferred from Sequence Orthology more info
involved_in artery morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell population proliferation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within central nervous system development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cranial skeletal system development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in descending aorta development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in dorsal/ventral pattern formation	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within dorsal/ventral pattern formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryonic axis specification	IDA Inferred from Direct Assay more info	PubMed
involved_in embryonic heart tube development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in epithelial cell fate commitment	IDA Inferred from Direct Assay more info	PubMed
involved_in exploration behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in fibroblast growth factor receptor signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
involved_in forebrain development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within forebrain development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within gastrulation with mouth forming second	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in in utero embryonic development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in long-term synaptic potentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in maintenance of protein location	IDA Inferred from Direct Assay more info	PubMed
involved_in mesenchymal cell fate commitment	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within mesoderm formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within multicellular organism development	IEA Inferred from Electronic Annotation more info
involved_in multicellular organism development	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of BMP signaling pathway	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within negative regulation of BMP signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of BMP signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of BMP signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of osteoblast differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of osteoblast differentiation	ISO Inferred from Sequence Orthology more info
involved_in neural crest formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron fate commitment	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within osteoblast differentiation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within pattern specification process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mesenchymal cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in presynaptic modulation of chemical synaptic transmission	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein import	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of neuronal synaptic plasticity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in short-term synaptic potentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within skeletal system development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in smoothened signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
involved_in specification of segmental identity, mandibular segment	IGI Inferred from Genetic Interaction more info	PubMed
involved_in synapse organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in venous blood vessel morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in visual learning	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in cell surface	IDA Inferred from Direct Assay more info	PubMed
is_active_in extracellular region	IDA Inferred from Direct Assay more info	PubMed
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info	PubMed
located_in extracellular space	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: chordin

NCBI Reference Sequences (RefSeq)

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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)

NM_001278041.2 → NP_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)

CT010490

Consensus CDS

CCDS88902.1

UniProtKB/Swiss-Prot

Q9Z0E2

UniProtKB/TrEMBL

A6H5Z6

Related

ENSMUSP00000156080.2, ENSMUST00000232646.2

Conserved Domains (3) summary

smart00214
Location:801 → 867

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:422 → 539

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:73 → 147

VWC; von Willebrand factor type C domain
NM_001354995.2 → NP_001341924.1 chordin isoform 3

Status: VALIDATED

Source sequence(s)

CT010490

Conserved Domains (4) summary

smart00214
Location:300 → 366

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:51 → 163

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl06473
Location:2 → 38

CHRD; CHRD domain

cl17735
Location:388 → 448

VWC; von Willebrand factor type C domain
NM_001354996.2 → NP_001341925.1 chordin isoform 4 precursor

Status: VALIDATED

Source sequence(s)

CT010490

Conserved Domains (3) summary

smart00214
Location:779 → 845

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:400 → 517

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:51 → 125

VWC; von Willebrand factor type C domain
NM_001416766.1 → NP_001403695.1 chordin isoform 5 precursor

Status: VALIDATED

Source sequence(s)

CT010490
NM_009893.3 → NP_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)

CT010490

Consensus CDS

CCDS28059.1

UniProtKB/Swiss-Prot

Q9Z0E2

Related

ENSMUSP00000007171.7, ENSMUST00000007171.13

Conserved Domains (3) summary

smart00214
Location:779 → 845

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:400 → 517

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:51 → 125

VWC; von Willebrand factor type C domain

RNA

NR_184392.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

CT010490

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...

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

Reference GRCm39 C57BL/6J

Genomic

NC_000082.7 Reference GRCm39 C57BL/6J

Range

20551492..20561134

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011245817.4 → XP_011244119.1 chordin isoform X6

Conserved Domains (3) summary

smart00214
Location:798 → 864

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:419 → 536

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:51 → 125

VWC; von Willebrand factor type C domain
XM_030248947.2 → XP_030104807.1 chordin isoform X7

Conserved Domains (3) summary

smart00214
Location:779 → 845

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:400 → 517

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:51 → 125

VWC; von Willebrand factor type C domain
XM_030248948.2 → XP_030104808.1 chordin isoform X8

Conserved Domains (3) summary

smart00214
Location:779 → 845

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:400 → 517

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:51 → 125

VWC; von Willebrand factor type C domain
XM_011245814.3 → XP_011244116.1 chordin isoform X1

Conserved Domains (3) summary

smart00214
Location:820 → 886

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:441 → 558

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:73 → 147

VWC; von Willebrand factor type C domain
XM_011245815.3 → XP_011244117.1 chordin isoform X2

Conserved Domains (3) summary

smart00214
Location:820 → 886

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:441 → 558

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:73 → 147

VWC; von Willebrand factor type C domain
XM_011245816.3 → XP_011244118.1 chordin isoform X3

Conserved Domains (3) summary

smart00214
Location:820 → 886

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:441 → 558

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:73 → 147

VWC; von Willebrand factor type C domain
XM_036159761.1 → XP_036015654.1 chordin isoform X4

Conserved Domains (3) summary

smart00214
Location:820 → 886

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:441 → 558

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:73 → 147

VWC; von Willebrand factor type C domain
XM_006521745.4 → XP_006521808.1 chordin isoform X5

Conserved Domains (3) summary

smart00214
Location:801 → 867

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:422 → 539

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:73 → 147

VWC; von Willebrand factor type C domain
XM_036159763.1 → XP_036015656.1 chordin isoform X10

Conserved Domains (3) summary

smart00214
Location:413 → 479

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:34 → 151

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:501 → 561

VWC; von Willebrand factor type C domain
XM_036159762.1 → XP_036015655.1 chordin isoform X10

Conserved Domains (3) summary

smart00214
Location:413 → 479

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:34 → 151

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:501 → 561

VWC; von Willebrand factor type C domain
XM_030248950.2 → XP_030104810.1 chordin isoform X11

Conserved Domains (3) summary

smart00214
Location:413 → 479

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:34 → 151

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:501 → 561

VWC; von Willebrand factor type C domain
XM_017316861.1 → XP_017172350.1 chordin isoform X9

Conserved Domains (4) summary

smart00214
Location:571 → 637

VWC; von Willebrand factor (vWF) type C domain

smart00754
Location:192 → 309

CHRD; A domain in the BMP inhibitor chordin and in microbial proteins

cl17735
Location:659 → 719

VWC; von Willebrand factor type C domain

cl06473
Location:24 → 65

CHRD; CHRD domain