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Aliases for HHIP Gene

Aliases for HHIP Gene

  • Hedgehog Interacting Protein 2 3 5
  • Hedgehog-Interacting Protein 2 3
  • HIP 3 4

External Ids for HHIP Gene

Previous GeneCards Identifiers for HHIP Gene

  • GC04P146367
  • GC04P145939
  • GC04P146144
  • GC04P145924
  • GC04P145786
  • GC04P145567
  • GC04P141298

Summaries for HHIP Gene

Entrez Gene Summary for HHIP Gene

  • This gene encodes a member of the hedgehog-interacting protein (HHIP) family. The hedgehog (HH) proteins are evolutionarily conserved protein, which are important morphogens for a wide range of developmental processes, including anteroposterior patterns of limbs and regulation of left-right asymmetry in embryonic development. Multiple cell-surface receptors are responsible for transducing and/or regulating HH signals. The HHIP encoded by this gene is a highly conserved, vertebrate-specific inhibitor of HH signaling. It interacts with all three HH family members, SHH, IHH and DHH. Two single nucleotide polymorphisms (SNPs) near this gene are significantly associated with risk of chronic obstructive pulmonary disease (COPD). A single nucleotide polymorphism in this gene is also strongly associated with human height.[provided by RefSeq, Feb 2011]

GeneCards Summary for HHIP Gene

HHIP (Hedgehog Interacting Protein) is a Protein Coding gene. Diseases associated with HHIP include Stature Quantitative Trait Locus 12 and Chondrodysplasia, Blomstrand Type. Among its related pathways are Signaling by Hedgehog and Wnt Signaling Pathways: beta-Catenin-dependent Wnt Signaling. Gene Ontology (GO) annotations related to this gene include quinone binding and hedgehog family protein binding. An important paralog of this gene is HHIPL2.

UniProtKB/Swiss-Prot for HHIP Gene

  • Modulates hedgehog signaling in several cell types including brain and lung through direct interaction with members of the hedgehog family.

Gene Wiki entry for HHIP Gene

Additional gene information for HHIP Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HHIP Gene

Genomics for HHIP Gene

GeneHancer (GH) Regulatory Elements for HHIP Gene

Promoters and enhancers for HHIP Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH04J144644 Promoter/Enhancer 2.8 VISTA UCNEbase EPDnew Ensembl ENCODE dbSUPER 650.7 +0.7 667 4.3 HDAC1 MZF1 ZNF2 ZNF335 TCF12 GLIS2 SCRT2 ZNF398 REST ZNF843 HHIP RTN3P1 HHIP-AS1
GH04J144708 Enhancer 0.7 Ensembl ENCODE 15.8 +64.4 64372 4.6 JUND JUN CREB1 FOS HHIP HHIP-AS1 GC04P144686 ENSG00000273621
GH04J144578 Enhancer 0.9 Ensembl ENCODE 11 -64.4 -64416 6.7 ELF3 CTCF FOXA2 JUN SIN3A ZNF384 RAD21 GATA3 FOSL2 RXRA HHIP HHIP-AS1 KRT18P51
GH04J145034 Promoter/Enhancer 1.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 4.4 +389.1 389111 1.9 PKNOX1 ZNF592 FOSL1 JUND ATF4 IKZF1 FOS TRIM24 SPI1 RN7SKP235 ABCE1 HHIP ANAPC10 ENSG00000251452
GH04J144666 Enhancer 0.4 ENCODE dbSUPER 12.7 +21.0 21048 0.2 HHIP HHIP-AS1 GC04P144686
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around HHIP on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the HHIP gene promoter:
  • POU3F2 (N-Oct-5b)
  • POU3F2 (N-Oct-5a)
  • POU3F2
  • GATA-6
  • Zic1
  • FAC1
  • SRF (504 AA)
  • SRF
  • GCNF

Genomic Locations for HHIP Gene

Genomic Locations for HHIP Gene
99,276 bases
Plus strand
99,276 bases
Plus strand

Genomic View for HHIP Gene

Genes around HHIP on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HHIP Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HHIP Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HHIP Gene

Proteins for HHIP Gene

  • Protein details for HHIP Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Hedgehog-interacting protein
    Protein Accession:
    Secondary Accessions:
    • Q6PK09
    • Q8NCI7
    • Q9BXK3
    • Q9H1J4
    • Q9H7E7

    Protein attributes for HHIP Gene

    700 amino acids
    Molecular mass:
    78851 Da
    Quaternary structure:
    • Interacts with all three hedgehog family members, SHH, IHH and DHH.
    • Sequence=BAB14945.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for HHIP Gene

    Alternative splice isoforms for HHIP Gene


neXtProt entry for HHIP Gene

Post-translational modifications for HHIP Gene

  • Glycosylation at isoforms=459, Asn447, isoforms=416, and Asn99
  • Ubiquitination at Lys659, isoforms=2270, and isoforms=2247
  • Modification sites at PhosphoSitePlus

Other Protein References for HHIP Gene

No data available for DME Specific Peptides for HHIP Gene

Domains & Families for HHIP Gene

Gene Families for HHIP Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Predicted secreted proteins

Suggested Antigen Peptide Sequences for HHIP Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • A flexible loop interacts with the SHH zinc binding site and contributes to zinc binding.
  • Belongs to the HHIP family.
  • A flexible loop interacts with the SHH zinc binding site and contributes to zinc binding.
  • Belongs to the HHIP family.
genes like me logo Genes that share domains with HHIP: view

Function for HHIP Gene

Molecular function for HHIP Gene

UniProtKB/Swiss-Prot Function:
Modulates hedgehog signaling in several cell types including brain and lung through direct interaction with members of the hedgehog family.

Phenotypes From GWAS Catalog for HHIP Gene

Gene Ontology (GO) - Molecular Function for HHIP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003824 catalytic activity IEA --
GO:0005515 protein binding IPI 19561609
GO:0008270 zinc ion binding IDA 19561609
GO:0046872 metal ion binding IEA --
GO:0097108 hedgehog family protein binding IPI 19561611
genes like me logo Genes that share ontologies with HHIP: view
genes like me logo Genes that share phenotypes with HHIP: view

Animal Models for HHIP Gene

MGI Knock Outs for HHIP:

Animal Model Products

  • Taconic Biosciences Mouse Models for HHIP

miRNA for HHIP Gene

miRTarBase miRNAs that target HHIP

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for HHIP Gene

Localization for HHIP Gene

Subcellular locations from UniProtKB/Swiss-Prot for HHIP Gene

Cell membrane; Peripheral membrane protein. Secreted. Note=The last 22 C-terminal amino acids may participate in cell membrane attachment.
Isoform 2: Cytoplasm.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for HHIP gene
Compartment Confidence
plasma membrane 5
extracellular 5
nucleus 4
endoplasmic reticulum 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for HHIP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0005886 plasma membrane IEA --
GO:0005887 integral component of plasma membrane ISS 11435703
genes like me logo Genes that share ontologies with HHIP: view

Pathways & Interactions for HHIP Gene

genes like me logo Genes that share pathways with HHIP: view

SIGNOR curated interactions for HHIP Gene


Gene Ontology (GO) - Biological Process for HHIP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007165 signal transduction IEA --
GO:0007224 smoothened signaling pathway IEA --
GO:0007405 neuroblast proliferation IEA --
GO:0009887 animal organ morphogenesis IEA --
GO:0009953 dorsal/ventral pattern formation IEA --
genes like me logo Genes that share ontologies with HHIP: view

Drugs & Compounds for HHIP Gene

(1) Additional Compounds for HHIP Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with HHIP: view

Transcripts for HHIP Gene

mRNA/cDNA for HHIP Gene

Unigene Clusters for HHIP Gene

Hedgehog interacting protein:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for HHIP Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^ 17a · 17b ^ 18 ^ 19 ^ 20
SP1: - - - - - - - -
SP2: -
SP4: - - - -
SP5: -
SP6: -

Relevant External Links for HHIP Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HHIP Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HHIP Gene

mRNA differential expression in normal tissues according to GTEx for HHIP Gene

This gene is overexpressed in Brain - Hippocampus (x5.6), Brain - Spinal cord (cervical c-1) (x4.4), Brain - Substantia nigra (x4.3), Brain - Amygdala (x4.1), and Brain - Putamen (basal ganglia) (x4.1).

Protein differential expression in normal tissues from HIPED for HHIP Gene

This gene is overexpressed in Breast (63.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for HHIP Gene

Protein tissue co-expression partners for HHIP Gene

NURSA nuclear receptor signaling pathways regulating expression of HHIP Gene:


SOURCE GeneReport for Unigene cluster for HHIP Gene:


mRNA Expression by UniProt/SwissProt for HHIP Gene:

Tissue specificity: Widely expressed in fetal and adult tissues. Highest expression in adult heart, liver and pancreas, and in fetal kidney.

Evidence on tissue expression from TISSUES for HHIP Gene

  • Nervous system(4.7)
  • Heart(4.3)
  • Muscle(4.1)
  • Kidney(2.4)
  • Lung(2.4)
genes like me logo Genes that share expression patterns with HHIP: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for HHIP Gene

Orthologs for HHIP Gene

This gene was present in the common ancestor of chordates.

Orthologs for HHIP Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia HHIP 34 33
  • 99.52 (n)
(Canis familiaris)
Mammalia HHIP 34 33
  • 93.43 (n)
(Bos Taurus)
Mammalia HHIP 34 33
  • 91.76 (n)
(Monodelphis domestica)
Mammalia HHIP 34
  • 91 (a)
(Ornithorhynchus anatinus)
Mammalia HHIP 34
  • 89 (a)
(Mus musculus)
Mammalia Hhip 16 34 33
  • 88.62 (n)
(Rattus norvegicus)
Mammalia Hhip 33
  • 88.43 (n)
(Gallus gallus)
Aves HHIP 34 33
  • 80.98 (n)
(Anolis carolinensis)
Reptilia HHIP 34
  • 89 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia hhip 33
  • 77.69 (n)
Str.9010 33
African clawed frog
(Xenopus laevis)
Amphibia hhip-prov 33
(Danio rerio)
Actinopterygii hhip 34 33
  • 66.76 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 25 (a)
Species where no ortholog for HHIP was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for HHIP Gene

Gene Tree for HHIP (if available)
Gene Tree for HHIP (if available)
Evolutionary constrained regions (ECRs) for HHIP: view image

Paralogs for HHIP Gene

Paralogs for HHIP Gene

(1) SIMAP similar genes for HHIP Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with HHIP: view

Variants for HHIP Gene

Polymorphic Variants from UniProtKB/Swiss-Prot for HHIP Gene

Genetic variations in HHIP define the stature quantitative trait locus 12 (STQTL12) [MIM:612224]. Adult height is an easily observable and highly heritable complex continuous trait. Because of this, it is a model trait for studying genetic influence on quantitative traits.

Sequence variations from dbSNP and Humsavar for HHIP Gene

SNP ID Clin Chr 04 pos Variation AA Info Type
rs1000084423 -- 144,715,859(+) T/A intron_variant
rs1000107109 -- 144,722,708(+) G/T intron_variant
rs1000164242 -- 144,729,068(+) T/C intron_variant
rs1000184775 -- 144,737,222(+) A/C intron_variant
rs1000188175 -- 144,709,013(+) A/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for HHIP Gene

Variant ID Type Subtype PubMed ID
esv2578862 CNV deletion 19546169
esv3340597 CNV insertion 20981092

Variation tolerance for HHIP Gene

Residual Variation Intolerance Score: 63.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.02; 60.41% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for HHIP Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

Disorders for HHIP Gene

MalaCards: The human disease database

(5) MalaCards diseases for HHIP Gene - From: HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
stature quantitative trait locus 12
  • stqtl12
chondrodysplasia, blomstrand type
  • bocd
metaphyseal chondrodysplasia, jansen type
  • metaphyseal chondrodysplasia, murk jansen type
basal cell carcinoma
  • basal cell cancer
  • holoprosencephaly sequence
- elite association - COSMIC cancer census association via MalaCards
Search HHIP in MalaCards View complete list of genes associated with diseases

Additional Disease Information for HHIP

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with HHIP: view

No data available for UniProtKB/Swiss-Prot and Genatlas for HHIP Gene

Publications for HHIP Gene

  1. The human hedgehog-interacting protein gene: structure and chromosome mapping to 4q31.21-->q31.3. (PMID: 11435703) Bak M … Tommerup N (Cytogenetics and cell genetics 2001) 2 3 4 22 58
  2. The structure of SHH in complex with HHIP reveals a recognition role for the Shh pseudo active site in signaling. (PMID: 19561609) Bosanac I … Lazarus RA (Nature structural & molecular biology 2009) 3 4 22 58
  3. Structural insights into hedgehog ligand sequestration by the human hedgehog-interacting protein HHIP. (PMID: 19561611) Bishop B … Siebold C (Nature structural & molecular biology 2009) 3 4 22 58
  4. A genome-wide association study in chronic obstructive pulmonary disease (COPD): identification of two major susceptibility loci. (PMID: 19300482) Pillai SG … ICGN Investigators (PLoS genetics 2009) 3 22 44 58
  5. A genome-wide association study of pulmonary function measures in the Framingham Heart Study. (PMID: 19300500) Wilk JB … O'Connor GT (PLoS genetics 2009) 3 22 44 58

Products for HHIP Gene

Sources for HHIP Gene

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