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shdb Src homology 2 domain containing transforming protein D, b [ Danio rerio (zebrafish) ]

Gene ID: 564537, updated on 12-Sep-2024

Summary

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Official Symbol
shdbprovided by ZNC
Official Full Name
Src homology 2 domain containing transforming protein D, bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-6059
See related
Ensembl:ENSDARG00000062109 AllianceGenome:ZFIN:ZDB-GENE-030131-6059
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
shd; wu:fb38a12; wu:fi32h10; zgc:153246; zgc:153975; zgc:158798; si:dkeyp-31e2.2
Summary
Predicted to enable phosphotyrosine residue binding activity. Is expressed in several structures, including nervous system; pectoral fin musculature; segmental plate; solid lens vesicle; and tail bud. Orthologous to human SHD (Src homology 2 domain containing transforming protein D). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See shdb in Genome Data Viewer
Location:
chromosome: 22
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (21398507..21471107)
105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (21373529..21440827)

Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene SHC (Src homology 2 domain containing) transforming protein 2 Neighboring gene ankyrin repeat domain 24 Neighboring gene sphingosine-1-phosphate receptor 3a Neighboring gene mesoderm induction early response 1, family member 2

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 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. Identification of vasculature-specific genes by microarray analysis of Etsrp/Etv2 overexpressing zebrafish embryos. Wong KS, et al. Dev Dyn, 2009 Jul. PMID 19504456
  2. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC153246, MGC158798

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables phosphotyrosine residue binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
  

General protein information

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Preferred Names
Src homology 2 domain containing transforming protein D, b; src homology 2 domain containing transforming protein D, b

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_001045077.2 → NP_001038542.1  Src homology 2 domain containing transforming protein D, b

    See identical proteins and their annotated locations for NP_001038542.1

    Status: PROVISIONAL

    Source sequence(s)
    BX470234, BX470239
    UniProtKB/TrEMBL
    Q08BY4, Q1LX13
    Conserved Domains (1) summary
    cd09945
    Location:289 → 386
    SH2_SHB_SHD_SHE_SHF_like; Src homology 2 domain found in SH2 domain-containing adapter proteins B, D, E, and F (SHB, SHD, SHE, SHF)

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007133.7 Reference GRCz11 Primary Assembly

    Range
    21398507..21471107
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021469342.2 → XP_021325017.1  src homology 2 domain containing transforming protein D, b isoform X1

    UniProtKB/TrEMBL
    A0A8M3AMA3
    Conserved Domains (1) summary
    cd09945
    Location:315 → 412
    SH2_SHB_SHD_SHE_SHF_like; Src homology 2 domain found in SH2 domain-containing adapter proteins B, D, E, and F (SHB, SHD, SHE, SHF)

  2. XM_009296270.4 → XP_009294545.1  src homology 2 domain containing transforming protein D, b isoform X1

    UniProtKB/TrEMBL
    A0A8M3AMA3
    Conserved Domains (1) summary
    cd09945
    Location:315 → 412
    SH2_SHB_SHD_SHE_SHF_like; Src homology 2 domain found in SH2 domain-containing adapter proteins B, D, E, and F (SHB, SHD, SHE, SHF)

  3. XM_005170476.5 → XP_005170533.1  src homology 2 domain containing transforming protein D, b isoform X2

    See identical proteins and their annotated locations for XP_005170533.1

    UniProtKB/TrEMBL
    Q08BY4, Q1LX13
    Related
    ENSDARP00000083841.5, ENSDART00000089408.6
    Conserved Domains (1) summary
    cd09945
    Location:289 → 386
    SH2_SHB_SHD_SHE_SHF_like; Src homology 2 domain found in SH2 domain-containing adapter proteins B, D, E, and F (SHB, SHD, SHE, SHF)

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018395104.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    104170..167880
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001077367.1: Suppressed sequence

    Description
    NM_001077367.1: This RefSeq was temporarily suppressed because currently there is not sufficient data to support this transcript.
Nucleotide Protein Strain
Heading Accession and Version

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