Msx1 msh homeobox 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Msx1provided by RGD
Official Full Name: msh homeobox 1provided by RGD
Primary source: RGD:620929
See related: EnsemblRapid:ENSRNOG00000078426 AllianceGenome:RGD:620929
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 factor activity, RNA polymerase II-specific; p53 binding activity; and transcription cis-regulatory region binding activity. Predicted to contribute to transcription cis-regulatory region binding activity. Involved in cartilage development; cellular response to nicotine; and pituitary gland development. Predicted to be located in nucleoplasm. Predicted to be part of transcription regulator complex. Predicted to be active in nuclear periphery. Biomarker of cryptorchidism. Human ortholog(s) of this gene implicated in cleft lip; cleft palate; orofacial cleft 5; tooth and nail syndrome; and tooth disease (multiple). Orthologous to human MSX1 (msh homeobox 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Uterus (RPKM 47.9), Heart (RPKM 18.5) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 14q21

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	14	NC_086032.1 (77185802..77189735)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	14	NC_051349.1 (72961036..72964970)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	14	NC_005113.4 (77712262..77716061)

Chromosome 14 - NC_086032.1 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 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?

Forms a ternary complex with serum response factor (SRF) and myocardin, inhibiting the binding of SRF or SRF/myocardin to the CCAAAAAAGG (CArG)-box motif, resulting in inhibition of their transcription.
Title: Bone morphogenetic protein-induced MSX1 and MSX2 inhibit myocardin-dependent smooth muscle gene transcription.

Submit: New GeneRIF Correction

General gene information

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Markers

Msx1 (e-PCR), detects polymorphism
- UniSTS:532515

Msx1 (e-PCR), detects polymorphism
- UniSTS:143915

Msx1 (e-PCR), detects polymorphism
- UniSTS:516406

Msx1 (e-PCR), detects polymorphism
- UniSTS:536422

RH130342 (e-PCR)
- UniSTS:213626

Msx1 (e-PCR), detects polymorphism
- UniSTS:547457

AI324650 (e-PCR)
- UniSTS:179159

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables p53 binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
contributes_to transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of BMP signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within BMP signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within activation of meiosis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within anterior/posterior pattern specification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within bone morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in cartilage development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cartilage morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in cell morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell surface receptor signaling pathway involved in heart development	ISO Inferred from Sequence Orthology more info
involved_in cellular response to nicotine	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within embryonic digit morphogenesis	ISO Inferred from Sequence Orthology more info
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 limb morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in embryonic morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within embryonic nail plate morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in embryonic nail plate morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in epithelial to mesenchymal transition	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epithelial to mesenchymal transition involved in endocardial cushion formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within face morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in face morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within forebrain development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heart development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heart morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within in utero embryonic development	ISO Inferred from Sequence Orthology more info
involved_in inner ear development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mammary gland epithelium development	ISO Inferred from Sequence Orthology more info
acts_upstream_of mesenchymal cell apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in mesenchymal cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within midbrain development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within middle ear morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within muscle organ development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell growth	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of negative regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of odontoblast differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of striated muscle cell differentiation	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 negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in nose development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within odontogenesis	ISO Inferred from Sequence Orthology more info
involved_in odontogenesis	ISO Inferred from Sequence Orthology more info
involved_in odontogenesis of dentin-containing tooth	ISO Inferred from Sequence Orthology more info
involved_in pituitary gland development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within positive regulation of BMP signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell cycle	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of intrinsic apoptotic signaling pathway by p53 class mediator	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of mesenchymal cell apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of odontogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in protein localization to nucleus	ISO Inferred from Sequence Orthology more info
involved_in protein stabilization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of odontogenesis	ISO Inferred from Sequence Orthology more info
involved_in regulation of odontogenesis	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
acts_upstream_of_or_within roof of mouth development	ISO Inferred from Sequence Orthology more info
involved_in roof of mouth development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within signal transduction involved in regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within stem cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in nuclear periphery	ISO Inferred from Sequence Orthology more info
located_in nuclear periphery	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: homeobox protein MSX-1

Names: homeo box, msh-like 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.