Ihh Indian hedgehog signaling molecule [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ihhprovided by RGD
Official Full Name: Indian hedgehog signaling moleculeprovided by RGD
Primary source: RGD:620021
See related: EnsemblRapid:ENSRNOG00000018059 AllianceGenome:RGD:620021
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 calcium ion binding activity; patched binding activity; and very-low-density lipoprotein particle binding activity. Involved in several processes, including liver regeneration; maternal process involved in female pregnancy; and response to estradiol. Predicted to be located in extracellular matrix; extracellular region; and plasma membrane. Predicted to be active in extracellular space. Biomarker of osteoarthritis. 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, Nov 2024]
Expression: Biased expression in Kidney (RPKM 25.6), Liver (RPKM 13.1) and 2 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q33

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (83952986..83959203, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (76504315..76510532, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (82208223..82214440, complement)

Chromosome 9 - NC_086027.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

ERbeta Regulation of Indian Hedgehog Expression in the First Wave of Ovarian Follicles.
Title: ERβ Regulation of Indian Hedgehog Expression in the First Wave of Ovarian Follicles.
miR-143 is implicated in growth plate injury by targeting IHH in precartilaginous stem cells.
Title: miR-143 is implicated in growth plate injury by targeting IHH in precartilaginous stem cells.
The value of the hedgehog signal in osteoblasts in fluoride-induced bone-tissue injury.
Title: The value of the hedgehog signal in osteoblasts in fluoride-induced bone-tissue injury.
the Ihh signaling pathway may activate the occurrence of Temporomandibular joint osteoarthritis by mediating the hypertrophy of chondrocytes
Title: Expression of Ihh signaling pathway in condylar cartilage after bite-raising in adult rats.
IHH signaling pathway is active during the tendon-bone healing process and appears to be mechanosensitive
Title: Indian hedgehog signaling and the role of graft tension in tendon-to-bone healing: Evaluation in a rat ACL reconstruction model.
Increased Ihh is associated with the severity of osteoarthritis cartilage damage.
Title: Indian hedgehog in synovial fluid is a novel marker for early cartilage lesions in human knee joint.
The PTHrP and Ihh gene expressions decreased by 75 and 81%, respectively, although their protein expressions increased in surgically induced osteoarthritis.
Title: The expressions of the SOX trio, PTHrP (parathyroid hormone-related peptide)/IHH (Indian hedgehog protein) in surgically induced osteoarthritis of the rat.
investigation of role of Ihh in protection of insulin-secreting cells from pro-apoptotic effects of cytokines: cytokines increased Ihh expression; inhibition of hedgehog signaling or Ihh knockdown increased cytokine-induced apoptosis
Title: Protective effect of hedgehog signaling on cytokine-induced cytotoxicity in pancreatic beta-cells.
Ihh signaling pathway plays an important role in regulating the proliferation and apoptosis of precartilaginous stem cells.
Title: Blocking Ihh signaling pathway inhibits the proliferation and promotes the apoptosis of PSCs.
These results suggest that Ihh expression is maintained at a high level until the initiation of implantation, while the expression of Gli1 is decreased just prior to the initiation of implantation depending on the estradiol action.
Title: Steroidal regulation of Ihh and Gli1 expression in the rat uterus.

Submit: New GeneRIF Correction See all GeneRIFs (16)

General gene information

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Markers

BI275434 (e-PCR)
- UniSTS:249633

Ihh (e-PCR), detects polymorphism
- UniSTS:498474

RH140517 (e-PCR)
- UniSTS:222586

Ihh (e-PCR), detects polymorphism
- UniSTS:143529

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium ion binding	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion binding	ISO Inferred from Sequence Orthology more info
enables patched binding	IBA Inferred from Biological aspect of Ancestor more info
enables patched binding	ISO Inferred from Sequence Orthology more info
enables peptidase activity	IEA Inferred from Electronic Annotation more info
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	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within branching involved in blood vessel morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within camera-type eye development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within camera-type eye photoreceptor cell fate commitment	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cartilage development	ISO Inferred from Sequence Orthology more info
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
acts_upstream_of_or_within cell fate specification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell maturation	ISO Inferred from Sequence Orthology more info
acts_upstream_of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in cell-cell signaling	IEA Inferred from Electronic Annotation more info
acts_upstream_of chondrocyte differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chondrocyte differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chondrocyte differentiation involved in endochondral bone morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chondrocyte proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic camera-type eye morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic digestive tract morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic digit morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in embryonic digit morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic pattern specification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic skeletal joint development	ISO Inferred from Sequence Orthology more info
involved_in endochondral bone morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epithelial cell morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epithelial cell-cell adhesion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within head morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in heart looping	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 intein-mediated protein splicing	IEA Inferred from Electronic Annotation more info
involved_in liver regeneration	IEP Inferred from Expression Pattern more info	PubMed
involved_in maternal process involved in female pregnancy	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within morphogenesis of a branching structure	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within multicellular organism growth	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of T cell differentiation in thymus	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of alpha-beta T cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of chondrocyte differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of eye pigmentation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of immature T cell proliferation in thymus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ossification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within osteoblast differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within pancreas development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within pattern specification process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of T cell differentiation in thymus	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of alpha-beta T cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of collagen biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of epithelial cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of mesenchymal cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of smoothened signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of positive regulation of transcription by RNA polymerase II	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 autoprocessing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within proteoglycan metabolic process	ISO Inferred from Sequence Orthology more info
involved_in regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of growth	ISO Inferred from Sequence Orthology more info
involved_in response to estradiol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to mechanical stimulus	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within retinal pigment epithelium development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within skeletal system development	ISO Inferred from Sequence Orthology more info
involved_in skeletal system development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within smooth muscle tissue development	ISO Inferred from Sequence Orthology more info
involved_in smoothened signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within smoothened signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in smoothened signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in somite development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within vasculature development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within vitelline membrane formation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in extracellular matrix	ISO Inferred from Sequence Orthology more info
located_in extracellular region	ISO Inferred from Sequence Orthology more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: indian hedgehog protein

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_053384.1 → NP_445836.1 indian hedgehog protein precursor

See identical proteins and their annotated locations for NP_445836.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/TrEMBL

A6JVX0, F1LP42

Related

ENSRNOP00000024419.5, ENSRNOT00000024419.6

Conserved Domains (3) summary

cd00081
Location:203 → 347

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:192 → 386

Hint; Hint module

pfam01085
Location:44 → 189

HH_signal; Hedgehog amino-terminal signalling domain