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si:dkey-13a21.4 si:dkey-13a21.4 [ Danio rerio (zebrafish) ]

Gene ID: 494576, updated on 19-Jun-2024

Summary

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Official Symbol
si:dkey-13a21.4provided by ZNC
Official Full Name
si:dkey-13a21.4provided by ZNC
Primary source
ZFIN:ZDB-GENE-040724-163
See related
Ensembl:ENSDARG00000026098 AllianceGenome:ZFIN:ZDB-GENE-040724-163
Gene type
protein coding
RefSeq status
PREDICTED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zK13A21.4; zgc:110195
Summary
Predicted to enable GTP binding activity and GTPase activity. Predicted to be involved in endosome to lysosome transport and phagosome-lysosome fusion. Predicted to be active in late endosome; lysosome; and phagocytic vesicle. Is expressed in pronephric duct and ventral mesoderm. [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See si:dkey-13a21.4 in Genome Data Viewer
Location:
chromosome: 11
Exon count:
5
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 11 NC_007122.7 (25430835..25435927)
105 previous assembly GRCz10 (GCF_000002035.5) 11 NC_007122.6 (25193235..25198311)

Chromosome 11 - NC_007122.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101882529 Neighboring gene activity-dependent neuroprotector homeobox a Neighboring gene GATA binding protein 1a Neighboring gene host cell factor C1a Neighboring gene opsin 1 (cone pigments), short-wave-sensitive 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
  • 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. 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
  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

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables GTP binding IEA
Inferred from Electronic Annotation
more info
  
enables GTPase activity IEA
Inferred from Electronic Annotation
more info
  
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in endosome to lysosome transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in phagosome-lysosome fusion IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in late endosome IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in lysosome IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in phagocytic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
uncharacterized protein LOC494576

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_001013478.1 → NP_001013496.1  uncharacterized protein LOC494576

    See identical proteins and their annotated locations for NP_001013496.1

    Status: PREDICTED

    Source sequence(s)
    BC091450
    UniProtKB/TrEMBL
    Q5BJK1
    Related
    ENSDARP00000105621.2, ENSDART00000126403.4
    Conserved Domains (2) summary
    smart00175
    Location:9 → 174
    RAB; Rab subfamily of small GTPases
    cd01862
    Location:9 → 178
    Rab7; Rab GTPase family 7 (Rab7)

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_007122.7 Reference GRCz11 Primary Assembly

    Range
    25430835..25435927
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021479607.1 → XP_021335282.1  uncharacterized protein LOC494576 isoform X1

    UniProtKB/TrEMBL
    A0A0R4IQH0, A0A8M9PUW0
    Related
    ENSDARP00000137679.1, ENSDART00000164999.2
    Conserved Domains (1) summary
    cd01862
    Location:9 → 174
    Rab7; Rab GTPase family 7 (Rab7)

  2. XM_021479608.1 → XP_021335283.1  uncharacterized protein LOC494576 isoform X2

    UniProtKB/TrEMBL
    A0A8M9Q776
    Conserved Domains (1) summary
    cd01862
    Location:9 → 173
    Rab7; Rab GTPase family 7 (Rab7)

  3. XM_021479609.1 → XP_021335284.1  uncharacterized protein LOC494576 isoform X3

    UniProtKB/TrEMBL
    A0A8M9QD29
    Conserved Domains (1) summary
    cd01862
    Location:9 → 179
    Rab7; Rab GTPase family 7 (Rab7)

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394822.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    56916..61982
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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