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si:ch211-212k18.5 si:ch211-212k18.5 [ Danio rerio (zebrafish) ]

Gene ID: 562900, updated on 4-Jan-2025

Summary

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Official Symbol
si:ch211-212k18.5provided by ZNC
Official Full Name
si:ch211-212k18.5provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-379
See related
Ensembl:ENSDARG00000103316 AllianceGenome:ZFIN:ZDB-GENE-030131-379
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
Also known as
fb25b09; wu:fb25b09
Summary
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in coloboma. Orthologous to human SALL2 (spalt like transcription factor 2). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs
all
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Genomic context

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See si:ch211-212k18.5 in Genome Data Viewer
Location:
chromosome: 7
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (19552370..19558842)
105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (19300359..19306874)

Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene tetratricopeptide repeat domain 5 Neighboring gene cyclin B1 interacting protein 1 Neighboring gene solute carrier family 7 member 7 Neighboring gene OXA1L mitochondrial inner membrane protein

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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  2. 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

Function Evidence Code Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
sal-like protein 2

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_007118.7 Reference GRCz11 Primary Assembly

    Range
    19552370..19558842
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021477752.2 → XP_021333427.1  sal-like protein 2

    UniProtKB/TrEMBL
    A0A0R4I9L7, A0A8N7TB39
    Related
    ENSDARP00000130030.1, ENSDART00000169060.2
    Conserved Domains (3) summary
    sd00017
    Location:703 → 723
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:378 → 403
    zf-H2C2_2; Zinc-finger double domain
    cl27975
    Location:58 → 268
    EBV-NA3; Epstein-Barr virus nuclear antigen 3 (EBNA-3)

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394683.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    274577..281049
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_686268.10 → XP_691360.5  sal-like protein 2

    UniProtKB/TrEMBL
    A0A0R4I9L7, A0A8N7TB39
    Conserved Domains (3) summary
    sd00017
    Location:703 → 723
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:378 → 403
    zf-H2C2_2; Zinc-finger double domain
    cl27975
    Location:58 → 268
    EBV-NA3; Epstein-Barr virus nuclear antigen 3 (EBNA-3)
Nucleotide Protein
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