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Cdx1 caudal type homeo box 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 364883, updated on 27-Nov-2024

Summary

Official Symbol
Cdx1provided by RGD
Official Full Name
caudal type homeo box 1provided by RGD
Primary source
RGD:621233
See related
EnsemblRapid:ENSRNOG00000060334 AllianceGenome:RGD:621233
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and methyl-CpG binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II and regulation of somitogenesis. Predicted to act upstream of or within anterior/posterior pattern specification and bone morphogenesis. Predicted to be located in nucleus. Orthologous to human CDX1 (caudal type homeobox 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Lung (RPKM 4.8), Thymus (RPKM 0.6) and 3 other tissues See more
Orthologs
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Genomic context

See Cdx1 in Genome Data Viewer
Location:
18q12.1
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (56742970..56761299, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (54472587..54490913, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (56337485..56355477, complement)

Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene calcium/calmodulin-dependent protein kinase II alpha Neighboring gene solute carrier family 6 member 7 Neighboring gene platelet derived growth factor receptor beta Neighboring gene uncharacterized LOC120098110

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

General gene information

Markers

Gene Ontology Provided by RGD

Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
homeobox protein CDX-1
Names
caudal type homeobox transcription factor 1
caudal-type homeobox protein 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_001419633.1NP_001406562.1  homeobox protein CDX-1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000018
    UniProtKB/TrEMBL
    A0A0G2K086
    Related
    ENSRNOP00000071345.2, ENSRNOT00000083379.3

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086036.1 Reference GRCr8

    Range
    56742970..56761299 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)