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Alx1 ALX homeobox 1 [ Mus musculus (house mouse) ]

Gene ID: 216285, updated on 5-Jan-2023

Summary

Official Symbol
Alx1provided by MGI
Official Full Name
ALX homeobox 1provided by MGI
Primary source
MGI:MGI:104621
See related
Ensembl:ENSMUSG00000036602 AllianceGenome:MGI:104621
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
Cart1; C130005I02
Summary
Enables DNA-binding transcription factor activity and sequence-specific DNA binding activity. Acts upstream of or within several processes, including embryonic morphogenesis; mesenchymal cell development; and roof of mouth development. Located in nucleus. Part of transcription regulator complex. Is expressed in several structures, including branchial arch; embryo mesenchyme; genitourinary system; limb primordium; and nose. Orthologous to human ALX1 (ALX homeobox 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in testis adult (RPKM 6.2), CNS E11.5 (RPKM 2.3) and 3 other tissues See more
Orthologs
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Genomic context

See Alx1 in Genome Data Viewer
Location:
10 D1; 10 53.56 cM
Exon count:
6
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (102843708..102865501, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (103007847..103029549, complement)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene Ras association (RalGDS/AF-6) domain family (N-terminal) member 9 Neighboring gene predicted gene 5175 Neighboring gene predicted gene, 34298 Neighboring gene leucine-rich repeats and IQ motif containing 1 Neighboring gene predicted gene, 25376 Neighboring gene RIKEN cDNA 6430590A10 gene Neighboring gene solute carrier family 6 (neurotransmitter transporter), member 15

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

Process Evidence Code Pubs
acts_upstream_of_or_within anterior/posterior pattern specification IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within embryonic limb morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in embryonic skeletal system morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within embryonic skeletal system morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within mesenchymal cell development 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 negative regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in neural crest cell migration IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within neural tube closure IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of epithelial to mesenchymal transition ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within roof of mouth development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within stem cell development IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
part_of transcription regulator complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
ALX homeobox protein 1
Names
cartilage homeoprotein 1

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_172553.4NP_766141.1  ALX homeobox protein 1

    See identical proteins and their annotated locations for NP_766141.1

    Status: VALIDATED

    Source sequence(s)
    AC167468
    Consensus CDS
    CCDS24155.1
    UniProtKB/Swiss-Prot
    Q8C370, Q8C8B0
    Related
    ENSMUSP00000042512.6, ENSMUST00000040859.6
    Conserved Domains (2) summary
    pfam00046
    Location:135189
    Homeobox; Homeobox domain
    pfam03826
    Location:302320
    OAR; OAR 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_000076.7 Reference GRCm39 C57BL/6J

    Range
    102843708..102865501 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006513529.4XP_006513592.1  ALX homeobox protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006513592.1

    UniProtKB/Swiss-Prot
    Q8C370, Q8C8B0
    Related
    ENSMUSP00000151776.2, ENSMUST00000218282.2
    Conserved Domains (2) summary
    pfam00046
    Location:135189
    Homeobox; Homeobox domain
    pfam03826
    Location:302320
    OAR; OAR domain
  2. XM_036155754.1XP_036011647.1  ALX homeobox protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q8C370
    Related
    ENSMUSP00000129230.2, ENSMUST00000167156.9
    Conserved Domains (2) summary
    pfam00046
    Location:135189
    Homeobox; Homeobox domain
    pfam03826
    Location:302320
    OAR; OAR domain