Alx3 ALX homeobox 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Alx3provided by RGD
Official Full Name: ALX homeobox 3provided by RGD
Primary source: RGD:1359270
See related: EnsemblRapid:ENSRNOG00000018290 AllianceGenome:RGD:1359270
Gene type: protein coding
RefSeq status: PROVISIONAL
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 factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within embryonic morphogenesis; pattern specification process; and regulation of apoptotic process. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in frontonasal dysplasia 1. Orthologous to human ALX3 (ALX homeobox 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Heart (RPKM 9.4), Uterus (RPKM 8.8) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 2q34

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (197919381..197929795)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (195231197..195241609)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (210376510..210386928)

Chromosome 2 - NC_086020.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Alx3 undergoes restrictive or permissive interactions with nuclear proteins that determine its binding to and transactivation from TAAT target sites selected in a cell-specific manner
Title: The homeoprotein Alx3 contains discrete functional domains and exhibits cell-specific and selective monomeric binding and transactivation.

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General gene information

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Markers

RH131082 (e-PCR)
- UniSTS:214365

Alx3 (e-PCR), detects polymorphism
- UniSTS:547182

D2Got134 (e-PCR)
- UniSTS:114288

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within embryonic forelimb morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic hindlimb morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic skeletal system morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within pattern specification process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

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

General protein information

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Preferred Names: homeobox protein aristaless-like 3

Names: aristaless 3; aristaless-like homeobox 3

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_001007012.2 → NP_001007013.2 homeobox protein aristaless-like 3

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000002

UniProtKB/TrEMBL

A6HUU7, F1LN97, Q6RW14

Related

ENSRNOP00000024611.5, ENSRNOT00000024611.7

Conserved Domains (1) summary

pfam00046
Location:157 → 210

Homeobox; Homeobox domain