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zgc:152670 zgc:152670 [ Danio rerio (zebrafish) ]

Gene ID: 557059, updated on 4-Jan-2025

Summary

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Official Symbol
zgc:152670provided by ZNC
Official Full Name
zgc:152670provided by ZNC
Primary source
ZFIN:ZDB-GENE-060929-954
See related
Ensembl:ENSDARG00000017038 AllianceGenome:ZFIN:ZDB-GENE-060929-954
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
si:ch211-265g22.3
Summary
Predicted to enable procollagen-proline 4-dioxygenase activity. Predicted to be located in endoplasmic reticulum lumen. Predicted to be active in endoplasmic reticulum. [provided by Alliance of Genome Resources, Jan 2025]
Orthologs
all
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Genomic context

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See zgc:152670 in Genome Data Viewer
Location:
chromosome: 2
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (44348471..44362943)
105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (44495473..44509945)

Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene myelin protein zero Neighboring gene ligase I, DNA, ATP-dependent Neighboring gene ETS domain-containing transcription factor ERF-like Neighboring gene phosphatidylinositol-4,5-bisphosphate 4-phosphatase 1a

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
  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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Homology

Clone Names

  • MGC152670

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables L-ascorbic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables dioxygenase activity IEA
Inferred from Electronic Annotation
more info
  
enables iron ion binding IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables oxidoreductase activity IEA
Inferred from Electronic Annotation
more info
  
enables oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen IEA
Inferred from Electronic Annotation
more info
  
enables procollagen-proline 4-dioxygenase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables procollagen-proline 4-dioxygenase activity IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
located_in endoplasmic reticulum lumen IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
uncharacterized protein LOC557059
Names
prolyl 4-hydroxylase alpha II-like
NP_001070123.2
XP_021336161.1

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_001076655.2 → NP_001070123.2  uncharacterized protein LOC557059 precursor

    Status: VALIDATED

    Source sequence(s)
    BC115349, CK019410
    UniProtKB/TrEMBL
    A0A8M1NAT9, Q1RLP2, Z4YHZ5
    Related
    ENSDARP00000088918.5, ENSDART00000098146.5
    Conserved Domains (2) summary
    smart00702
    Location:318 → 474
    P4Hc; Prolyl 4-hydroxylase alpha subunit homologues
    pfam08336
    Location:26 → 150
    P4Ha_N; Prolyl 4-Hydroxylase alpha-subunit, N-terminal region

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_007113.7 Reference GRCz11 Primary Assembly

    Range
    44348471..44362943
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021480486.2 → XP_021336161.1  uncharacterized protein LOC557059 isoform X1

    UniProtKB/TrEMBL
    A0A8M9QJG6, Q1RLP2
    Conserved Domains (2) summary
    smart00702
    Location:318 → 457
    P4Hc; Prolyl 4-hydroxylase alpha subunit homologues
    pfam08336
    Location:26 → 150
    P4Ha_N; Prolyl 4-Hydroxylase alpha-subunit, N-terminal region

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394512.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    262648..274467
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCz11 ALT_DRER_TU_2

Genomic

  1. NW_018395223.1 Reference GRCz11 ALT_DRER_TU_2

    Range
    188674..202238
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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