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Chrdl1 chordin-like 1 [ Mus musculus (house mouse) ]

Gene ID: 83453, updated on 26-Sep-2022

Summary

Official Symbol
Chrdl1provided by MGI
Official Full Name
chordin-like 1provided by MGI
Primary source
MGI:MGI:1933172
See related
Ensembl:ENSMUSG00000031283 AllianceGenome:MGI:1933172
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
CHL; CHL1; VOPT; Nrln1
Summary
Acts upstream of or within negative regulation of BMP signaling pathway. Predicted to be located in extracellular region. Is expressed in several structures, including alimentary system; embryo mesenchyme; genitourinary system; neural ectoderm; and skeletal system. Human ortholog(s) of this gene implicated in megalocornea. Orthologous to human CHRDL1 (chordin like 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in genital fat pad adult (RPKM 5.5), bladder adult (RPKM 4.9) and 18 other tissues See more
Orthologs
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Genomic context

See Chrdl1 in Genome Data Viewer
Location:
X; X F2
Exon count:
12
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) X NC_000086.8 (142068670..142177282, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (143285674..143394263, complement)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene retrotransposon Gag like 9 Neighboring gene actin, beta pseudogene Neighboring gene predicted gene, 23325 Neighboring gene p21 (RAC1) activated kinase 3

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

General gene information

Markers

Homology

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 transforming growth factor beta binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
involved_in AMPA glutamate receptor clustering IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in BMP signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cell fate determination ISO
Inferred from Sequence Orthology
more info
 
involved_in embryonic axis specification IDA
Inferred from Direct Assay
more info
PubMed 
involved_in excitatory chemical synaptic transmission IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in eye development ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within 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 
acts_upstream_of_or_within nervous system development IEA
Inferred from Electronic Annotation
more info
 
involved_in neuron differentiation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within ossification IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of synaptic plasticity IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in synapse maturation IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
is_active_in extracellular region IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
chordin-like protein 1
Names
neuralin-1
neurogenesin-1
ventroptin-alpha
ventroptin-beta

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)

  1. NM_001114385.1NP_001107857.1  chordin-like protein 1 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001107857.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the shorter transcript and encodes the longer isoform (1).
    Source sequence(s)
    AF321853, AL713920, BX119959
    Consensus CDS
    CCDS53208.1
    UniProtKB/Swiss-Prot
    Q920C1, Q9EPZ9
    Related
    ENSMUSP00000108499.3, ENSMUST00000112878.9
    Conserved Domains (1) summary
    cl17735
    Location:110173
    VWC; von Willebrand factor type C domain
  2. NM_001358592.1NP_001345521.1  chordin-like protein 1 isoform 3 precursor

    Status: VALIDATED

    Source sequence(s)
    AL713920, BX119959
    Conserved Domains (1) summary
    cl17735
    Location:111174
    VWC; von Willebrand factor type C domain
  3. NM_031258.3NP_112548.2  chordin-like protein 1 isoform 2 precursor

    See identical proteins and their annotated locations for NP_112548.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and lacks a portion of the 3' coding region, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AF296451, AL713920, BX119959
    Consensus CDS
    CCDS30453.1
    UniProtKB/Swiss-Prot
    Q920C1
    UniProtKB/TrEMBL
    Q3TP73
    Related
    ENSMUSP00000074230.6, ENSMUST00000074660.12
    Conserved Domains (1) summary
    cl17735
    Location:110173
    VWC; von Willebrand factor type C domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000086.8 Reference GRCm39 C57BL/6J

    Range
    142068670..142177282 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006529001.5XP_006529064.1  chordin-like protein 1 isoform X1

    Conserved Domains (1) summary
    cl17735
    Location:111174
    VWC; von Willebrand factor type C domain
  2. XM_006529002.5XP_006529065.1  chordin-like protein 1 isoform X2

    Conserved Domains (1) summary
    cl17735
    Location:110173
    VWC; von Willebrand factor type C domain