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Zkscan4 zinc finger with KRAB and SCAN domains 4 [ Mus musculus (house mouse) ]

Gene ID: 544922, updated on 5-Mar-2024

Summary

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Official Symbol
Zkscan4provided by MGI
Official Full Name
zinc finger with KRAB and SCAN domains 4provided by MGI
Primary source
MGI:MGI:3649412
See related
Ensembl:ENSMUSG00000054931 AllianceGenome:MGI:3649412
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Gm11272
Summary
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and identical protein binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Orthologous to human ZKSCAN4 (zinc finger with KRAB and SCAN domains 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in ovary adult (RPKM 3.3), CNS E18 (RPKM 2.7) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
13 A3.1; 13 7.82 cM
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (21663019..21669677)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (21478849..21485507)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4930470G03 gene Neighboring gene zinc finger and SCAN domain containing 26 Neighboring gene microRNA 1896 Neighboring gene STARR-positive B cell enhancer ABC_E11532 Neighboring gene NFKB activating protein-like Neighboring gene STARR-seq mESC enhancer starr_33853 Neighboring gene STARR-seq mESC enhancer starr_33854 Neighboring gene predicted gene, 23779 Neighboring gene STARR-seq mESC enhancer starr_33855 Neighboring gene nuclear encoded tRNA serine 2 (anticodon GCT)

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
  2. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
  3. The transcriptional landscape of the mammalian genome. Carninci P, et al. Science, 2005 Sep 2. PMID 16141072
  4. 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
  5. 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

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

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 identical protein binding ISO
Inferred from Sequence Orthology
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
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
zinc finger protein with KRAB and SCAN domains 4

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_001039115.2 → NP_001034204.1  zinc finger protein with KRAB and SCAN domains 4

    See identical proteins and their annotated locations for NP_001034204.1

    Status: VALIDATED

    Source sequence(s)
    AL589742, AW060540, BU148250, CJ065384
    Consensus CDS
    CCDS26277.1
    UniProtKB/TrEMBL
    A0A286YD55, Q5SZT6
    Related
    ENSMUSP00000054604.6, ENSMUST00000062609.6
    Conserved Domains (6) summary
    smart00431
    Location:47 → 155
    SCAN; leucine rich region
    COG5048
    Location:307 → 471
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:311 → 331
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:309 → 331
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:47 → 135
    SCAN; SCAN domain
    pfam13465
    Location:323 → 348
    zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000079.7 Reference GRCm39 C57BL/6J

    Range
    21663019..21669677
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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