Isx intestine specific homeobox [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Isxprovided by MGI
Official Full Name: intestine specific homeoboxprovided by MGI
Primary source: MGI:MGI:1918847
See related: Ensembl:ENSMUSG00000031621 AllianceGenome:MGI:1918847
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: Pix-1; 9130012O13Rik
Summary: Enables DNA-binding transcription repressor activity, RNA polymerase II-specific and sequence-specific DNA binding activity. Acts upstream of or within negative regulation of intestinal absorption; regulation of transcription by RNA polymerase II; and regulation of vitamin A metabolic process. Predicted to be located in nucleus. Is expressed in genitourinary system; midgut; and thymus. Orthologous to human ISX (intestine specific homeobox). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in large intestine adult (RPKM 83.9), duodenum adult (RPKM 41.5) and 2 other tissues See more
Orthologs: human all
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Genomic context

Location:: 8 C1; 8 35.54 cM

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	8	NC_000074.7 (75599326..75620134)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	8	NC_000074.6 (74873174..74893506)

Chromosome 8 - NC_000074.7 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: 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Genetics and diet regulate vitamin A production via the homeobox transcription factor ISX
Title: Genetics and diet regulate vitamin A production via the homeobox transcription factor ISX.
Isx participates in the maintenance of vitamin A metabolism by regulating Bcmo1 expression in the intestine.
Title: Isx participates in the maintenance of vitamin A metabolism by regulation of beta-carotene 15,15'-monooxygenase (Bcmo1) expression.

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Variation

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Alleles

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

Targeted (2) 1 citation
Endonuclease-mediated (2)

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation 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 repressor activity, RNA polymerase II-specific	IMP Inferred from Mutant Phenotype more info	PubMed
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within negative regulation of intestinal absorption	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation 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 regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of vitamin A metabolic process	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	IC Inferred by Curator more info	PubMed

General protein information

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Preferred Names: intestine-specific homeobox

Names: pancreas-intestine homeodomain transcription factor

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_001294278.2 → NP_001281207.1 intestine-specific homeobox isoform 1

See identical proteins and their annotated locations for NP_001281207.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longer isoform (1).

Source sequence(s)

AL603782

Consensus CDS

CCDS80899.1

UniProtKB/Swiss-Prot

A1A546

Related

ENSMUSP00000134368.2, ENSMUST00000174427.2

Conserved Domains (1) summary

pfam00046
Location:82 → 134

Homeobox; Homeobox domain
NM_027837.4 → NP_082113.2 intestine-specific homeobox isoform 2

See identical proteins and their annotated locations for NP_082113.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate splice junction at the 3' end of an exon compared to variant 1, that causes a frameshift. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.

Source sequence(s)

AL603782

Consensus CDS

CCDS40391.1

UniProtKB/Swiss-Prot

A1A545, A1A546, Q9D2Z0

UniProtKB/TrEMBL

B1Q2M1

Related

ENSMUSP00000034034.3, ENSMUST00000034034.10

Conserved Domains (1) summary

pfam00046
Location:82 → 134

Homeobox; Homeobox domain