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sdf4 stromal cell derived factor 4 [ Lates calcarifer (barramundi perch) ]

Gene ID: 108890820, updated on 1-Aug-2024

Summary

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Gene symbol
sdf4
Gene description
stromal cell derived factor 4
See related
EnsemblRapid:ENSLCAG00010025542
Gene type
protein coding
RefSeq status
MODEL
Organism
Lates calcarifer
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Neoteleostei; Acanthomorphata; Carangaria; Carangaria incertae sedis; Centropomidae; Lates
Orthologs
human zebrafish all
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Genomic context

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See sdf4 in Genome Data Viewer
Location:
chromosome: LG6
Exon count:
8
Annotation release Status Assembly LG Location
RS_2023_02 current TLL_Latcal_v3 (GCF_001640805.2) LG6 NC_066838.1 (23271966..23278554, complement)
100 previous assembly ASM164080v1 (GCF_001640805.1) Unplaced Scaffold NW_017363821.1 (2303475..2310045, complement)

Linkage Group LG6 - NC_066838.1Genomic Context describing neighboring genes Neighboring gene arf-GAP with coiled-coil, ANK repeat and PH domain-containing protein 3 Neighboring gene homeodomain interacting protein kinase 1a Neighboring gene C1q and TNF related 12 Neighboring gene uncharacterized LOC127138997

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Immune transcriptome reveals the mincle C-type lectin receptor acts as a partial replacement for TLR4 in lipopolysaccharide-mediated inflammatory response in barramundi (Lates calcarifer). Zoccola E, et al. Mol Immunol, 2017 Mar. PMID 28095348
  2. Primary analysis of repeat elements of the Asian seabass (Lates calcarifer) transcriptome and genome. Kuznetsova IS, et al. Front Genet, 2014. PMID 25120555, Free PMC Article
  3. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
  4. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in calcium-ion regulated exocytosis IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
45 kDa calcium-binding protein

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_001640805.2-RS_2023_02

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

Reference TLL_Latcal_v3 Primary Assembly

Genomic

  1. NC_066838.1 Reference TLL_Latcal_v3 Primary Assembly

    Range
    23271966..23278554 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_018687872.2 → XP_018543388.1  45 kDa calcium-binding protein

    UniProtKB/TrEMBL
    A0A4W6FVX2, A0AAJ7VAB2

  2. XM_018687942.2 → XP_018543458.1  45 kDa calcium-binding protein

    UniProtKB/TrEMBL
    A0A4W6FVX2, A0AAJ7VAB2
    Related
    ENSLCAP00010062940.1, ENSLCAT00010070943.1

  3. XM_018688025.2 → XP_018543541.1  45 kDa calcium-binding protein

    UniProtKB/TrEMBL
    A0A4W6FVX2, A0AAJ7VAB2
    Related
    ENSLCAP00010054783.1, ENSLCAT00010056234.2
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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