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shhb sonic hedgehog signaling molecule b [ Danio rerio (zebrafish) ]

Gene ID: 30444, updated on 19-Jun-2024

Summary

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Official Symbol
shhbprovided by ZNC
Official Full Name
sonic hedgehog signaling molecule bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-980526-41
See related
Ensembl:ENSDARG00000038867 AllianceGenome:ZFIN:ZDB-GENE-980526-41
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
twh; twhh
Summary
Predicted to enable calcium ion binding activity and patched binding activity. Acts upstream of or within several processes, including embryonic cranial skeleton morphogenesis; endocardial cell differentiation; and nervous system development. Predicted to be located in extracellular region and plasma membrane. Predicted to be active in extracellular space. Is expressed in several structures, including axis; central nervous system; head; neural keel; and neural plate. Human ortholog(s) of this gene implicated in several diseases, including Hirschsprung's disease; holoprosencephaly (multiple); hypoplastic or aplastic tibia with polydactyly; middle cerebral artery infarction; and polydactyly. Orthologous to human SHH (sonic hedgehog signaling molecule). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
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Genomic context

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See shhb in Genome Data Viewer
Location:
chromosome: 2
Exon count:
3
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (30050547..30055381, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (30067014..30071848, complement)

Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene engrailed homeobox 2b Neighboring gene canopy FGF signaling regulator 1 Neighboring gene RNA binding motif protein 33b Neighboring gene DnaJ heat shock protein family (Hsp40) member B6a Neighboring gene transient receptor potential cation channel, subfamily A, member 1a Neighboring gene potassium voltage-gated channel subfamily B member 2a

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. A zebrafish model of chordoma initiated by notochord-driven expression of HRASV12. Burger A, et al. Dis Model Mech, 2014 Jul. PMID 24311731, Free PMC Article
  2. Effective targeted gene 'knockdown' in zebrafish. Nasevicius A, et al. Nat Genet, 2000 Oct. PMID 11017081
  3. Control of her1 expression during zebrafish somitogenesis by a delta-dependent oscillator and an independent wave-front activity. Holley SA, et al. Genes Dev, 2000 Jul 1. PMID 10887161, Free PMC Article
  4. Conservation of shh cis-regulatory architecture of the coelacanth is consistent with its ancestral phylogenetic position. Lang M, et al. Evodevo, 2010 Nov 3. PMID 21047394, Free PMC Article
  5. Optimized Gal4 genetics for permanent gene expression mapping in zebrafish. Distel M, et al. Proc Natl Acad Sci U S A, 2009 Aug 11. PMID 19628697, Free PMC Article

See all (113) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. extraretinal and retinal hedgehog signaling sequentially regulate retinal differentiation
    Title: Extraretinal and retinal hedgehog signaling sequentially regulate retinal differentiation in zebrafish.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity, acting on ester bonds 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
  
enables peptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in animal organ development IEA
Inferred from Electronic Annotation
more info
  
involved_in cell development IEA
Inferred from Electronic Annotation
more info
  
involved_in cell fate commitment IEA
Inferred from Electronic Annotation
more info
  
involved_in cell fate specification IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within cell-cell signaling IEA
Inferred from Electronic Annotation
more info
  
involved_in central nervous system development IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within embryonic neurocranium morphogenesis IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within embryonic viscerocranium morphogenesis IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within endocardial cell differentiation IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within forebrain development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within gliogenesis IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in neuron differentiation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within neuron differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within neuron fate commitment IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in oligodendrocyte differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within protein autoprocessing IEA
Inferred from Electronic Annotation
more info
  
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
  
involved_in smoothened signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within striated muscle cell development IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in tissue development IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
  
located_in Golgi membrane IEA
Inferred from Electronic Annotation
more info
  
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
tiggy-winkle hedgehog protein
Names
sonic hedgehog b
sonic hedgehog protein B
tiggy winkle hedge hog
tiggy winkle hedgehog
twiggy-winkle hedgehog

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)

  1. NM_131199.2 → NP_571274.2  tiggy-winkle hedgehog protein precursor

    See identical proteins and their annotated locations for NP_571274.2

    Status: PROVISIONAL

    Source sequence(s)
    BC078321
    UniProtKB/Swiss-Prot
    O13212, Q90419
    UniProtKB/TrEMBL
    Q6DBX7
    Related
    ENSDARP00000056746.3, ENSDART00000056747.4
    Conserved Domains (3) summary
    cd00081
    Location:201 → 345
    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:190 → 403
    Hint; Hint module
    pfam01085
    Location:42 → 187
    HH_signal; Hedgehog amino-terminal signalling domain

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007113.7 Reference GRCz11 Primary Assembly

    Range
    30050547..30055381 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q90419.1 GenPept UniProtKB/Swiss-Prot:Q90419

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