U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Ihh Indian hedgehog [ Mus musculus (house mouse) ]

Gene ID: 16147, updated on 12-Mar-2023

Summary

Official Symbol
Ihhprovided by MGI
Official Full Name
Indian hedgehogprovided by MGI
Primary source
MGI:MGI:96533
See related
Ensembl:ENSMUSG00000006538 AllianceGenome:MGI:96533
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
HHG-2
Summary
Enables patched binding activity. Involved in several processes, including heart looping; positive regulation of smoothened signaling pathway; and regulation of T cell differentiation. Acts upstream of or within several processes, including animal organ development; chordate embryonic development; and positive regulation of biosynthetic process. Located in extracellular matrix. Is expressed in several structures, including alimentary system; egg cylinder; genitourinary system; limb; and skeleton. Used to study Hirschsprung's disease; annular pancreas; and brachydactyly type A1. Human ortholog(s) of this gene implicated in acrocapitofemoral dysplasia; brachydactyly type A1; retinopathy of prematurity; and syndactyly type 1. Orthologous to human IHH (Indian hedgehog signaling molecule). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in colon adult (RPKM 64.9), duodenum adult (RPKM 59.3) and 8 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See Ihh in Genome Data Viewer
Location:
1 C4; 1 38.55 cM
Exon count:
3
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (74984474..74990831, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (74945315..74951672, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene microRNA 375 Neighboring gene cilia and flagella associated protein 65 Neighboring gene non-homologous end joining factor 1 Neighboring gene solute carrier family 23 (nucleobase transporters), member 3

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)

Pathways from PubChem

General gene information

Markers

Potential readthrough

Included gene: Nhej1

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables calcium ion binding ISO
Inferred from Sequence Orthology
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables patched binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables patched binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables patched binding ISO
Inferred from Sequence Orthology
more info
 
enables peptidase activity IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
enables very-low-density lipoprotein particle binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within bone resorption IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within branching involved in blood vessel morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within camera-type eye development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within camera-type eye photoreceptor cell fate commitment IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cartilage development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cartilage development ISO
Inferred from Sequence Orthology
more info
 
involved_in cell fate specification IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within cell fate specification IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cell maturation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cell-cell signaling IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within chondrocyte differentiation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of chondrocyte differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within chondrocyte differentiation involved in endochondral bone morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within chondrocyte proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within embryo development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within embryonic camera-type eye morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within embryonic digestive tract morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within embryonic digit morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within embryonic digit morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in embryonic digit morphogenesis ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within embryonic pattern specification IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within embryonic skeletal joint development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in endochondral bone morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within epithelial cell morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within epithelial cell-cell adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within head morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in heart looping IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within in utero embryonic development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in intein-mediated protein splicing IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within morphogenesis of a branching structure 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 multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within multicellular organism growth IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of T cell differentiation in thymus IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of alpha-beta T cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of apoptotic process ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of chondrocyte differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of eye pigmentation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of immature T cell proliferation in thymus IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within neuron development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within ossification IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within osteoblast differentiation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within osteoblast differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within osteoblast differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within pancreas development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within pancreas development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within pattern specification process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of T cell differentiation in thymus IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of alpha-beta T cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of cell population proliferation IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within positive regulation of cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of collagen biosynthetic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of epithelial cell proliferation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of mesenchymal cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of smoothened signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of smoothened signaling pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in protein autoprocessing IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within proteoglycan metabolic process IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within proteolysis IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within regulation of growth IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within retinal pigment epithelium development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within skeletal system development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in skeletal system development ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within smooth muscle tissue development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in smoothened signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within smoothened signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within smoothened signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in smoothened signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in somite development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within vasculature development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within vitelline membrane formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
 
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular matrix IDA
Inferred from Direct Assay
more info
PubMed 
located_in extracellular region ISO
Inferred from Sequence Orthology
more info
 
located_in extracellular region TAS
Traceable Author Statement
more info
 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001313683.1NP_001300612.1  indian hedgehog protein isoform 2 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' coding region and 3' UTR compared to variant 1. The encoded isoform (2) has a distinct, shorter C-terminus compared to isoform 1.
    Source sequence(s)
    AC139023, AK090147, AK144322
    UniProtKB/TrEMBL
    Q80XI9
    Related
    ENSMUST00000189364.2
    Conserved Domains (1) summary
    pfam01085
    Location:44189
    HH_signal; Hedgehog amino-terminal signalling domain
  2. NM_010544.3NP_034674.2  indian hedgehog protein isoform 1 preproprotein

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC139023, AI323361, AK144322
    Consensus CDS
    CCDS15061.2
    UniProtKB/Swiss-Prot
    P97812, Q61724
    UniProtKB/TrEMBL
    F6RLD8, Q80XI9
    Related
    ENSMUSP00000128056.3, ENSMUST00000164097.4
    Conserved Domains (3) summary
    cd00081
    Location:203347
    Hint; Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein, ...
    pfam01079
    Location:192396
    Hint; Hint module
    pfam01085
    Location:44189
    HH_signal; Hedgehog amino-terminal signalling 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_000067.7 Reference GRCm39 C57BL/6J

    Range
    74984474..74990831 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)