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ctcf CCCTC-binding factor (zinc finger protein) [ Danio rerio (zebrafish) ]

Gene ID: 415104, updated on 22-Nov-2020

Summary

Official Symbol
ctcfprovided by ZNC
Official Full Name
CCCTC-binding factor (zinc finger protein)provided by ZNC
Primary source
ZFIN:ZDB-GENE-040624-5
See related
Ensembl:ENSDARG00000056621
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
im:715266; im:7152666
Orthologs

Genomic context

See ctcf in Genome Data Viewer
Location:
chromosome: 18
Exon count:
12
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 18 NC_007129.7 (22286011..22293372)
105 previous assembly GRCz10 (GCF_000002035.5) 18 NC_007129.6 (22296360..22304317)
103 previous assembly Zv9 (GCF_000002035.4) 18 NC_007129.5 (22066682..22074094)

Chromosome 18 - NC_007129.7Genomic Context describing neighboring genes Neighboring gene zgc:158868 Neighboring gene uncharacterized LOC110438091 Neighboring gene RHO family interacting cell polarization regulator 1 Neighboring gene capping protein regulator and myosin 1 linker 2 Neighboring gene transmembrane protein 170A

Genomic regions, transcripts, and products

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

General gene information

Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
regulation of gene expression IDA
Inferred from Direct Assay
more info
PubMed 
regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of transcription, DNA-templated IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
skeletal muscle tissue development IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
chromatin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
transcriptional repressor CTCF

NCBI Reference Sequences (RefSeq)

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_001001844.1NP_001001844.1  transcriptional repressor CTCF

    See identical proteins and their annotated locations for NP_001001844.1

    Status: PROVISIONAL

    Source sequence(s)
    AY547282
    UniProtKB/TrEMBL
    Q6JAA4
    Related
    ENSDARP00000073595.2, ENSDART00000079139.4
    Conserved Domains (4) summary
    COG5048
    Location:406540
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:308328
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam06750
    Location:478523
    DiS_P_DiS; Bacterial Peptidase A24 N-terminal domain
    pfam13465
    Location:434458
    zf-H2C2_2; Zinc-finger double domain

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_007129.7 Reference GRCz11 Primary Assembly

    Range
    22286011..22293372
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018395025.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    138694..146053
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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