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si:dkey-202e22.2 si:dkey-202e22.2 [ Danio rerio (zebrafish) ]

Gene ID: 560497, updated on 2-Nov-2024

Summary

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Official Symbol
si:dkey-202e22.2provided by ZNC
Official Full Name
si:dkey-202e22.2provided by ZNC
Primary source
ZFIN:ZDB-GENE-141215-27
See related
Ensembl:ENSDARG00000061260 AllianceGenome:ZFIN:ZDB-GENE-141215-27
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Summary
Predicted to be located in extracellular region and membrane. [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
all
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Genomic context

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See si:dkey-202e22.2 in Genome Data Viewer
Location:
chromosome: 11
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 11 NC_007122.7 (34760872..34777711)
105 previous assembly GRCz10 (GCF_000002035.5) 11 NC_007122.6 (34498639..34515734)

Chromosome 11 - NC_007122.7Genomic Context describing neighboring genes Neighboring gene dynein, axonemal, heavy chain 1 Neighboring gene uncharacterized LOC137496718 Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 4a Neighboring gene uncharacterized LOC560659

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. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  3. 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

Gene Ontology Provided by ZFIN

Component Evidence Code Pubs
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
netrin-4

NCBI Reference Sequences (RefSeq)

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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_007122.7 Reference GRCz11 Primary Assembly

    Range
    34760872..34777711
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021479875.2 → XP_021335550.1  netrin-4

    UniProtKB/TrEMBL
    A0A8N7UQX3, E7EXX6
    Related
    ENSDARP00000081650.4, ENSDART00000087216.6
    Conserved Domains (5) summary
    smart00180
    Location:404 → 456
    EGF_Lam; Laminin-type epidermal growth factor-like domai
    cd00055
    Location:273 → 327
    EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...
    cd03578
    Location:530 → 640
    NTR_netrin-4_like; NTR domain, Netrin-4-like subfamily; composed of the C-terminal NTR domains of netrin-4 (beta netrin) and similar proteins. Netrins are secreted proteins that function as tropic cues in the direction of axon growth and cell migration during neural ...
    pfam00053
    Location:341 → 394
    Laminin_EGF; Laminin EGF domain
    cl02806
    Location:75 → 217
    Laminin_N; Laminin N-terminal (Domain VI)

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394823.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    1599..18438
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_683903.10 → XP_688995.3  netrin-4

    UniProtKB/TrEMBL
    A0A8N7UQX3, E7EXX6
    Conserved Domains (5) summary
    smart00180
    Location:404 → 456
    EGF_Lam; Laminin-type epidermal growth factor-like domai
    cd00055
    Location:273 → 327
    EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...
    cd03578
    Location:530 → 640
    NTR_netrin-4_like; NTR domain, Netrin-4-like subfamily; composed of the C-terminal NTR domains of netrin-4 (beta netrin) and similar proteins. Netrins are secreted proteins that function as tropic cues in the direction of axon growth and cell migration during neural ...
    pfam00053
    Location:341 → 394
    Laminin_EGF; Laminin EGF domain
    cl02806
    Location:75 → 217
    Laminin_N; Laminin N-terminal (Domain VI)
Nucleotide Protein
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