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Zkscan1 zinc finger with KRAB and SCAN domains 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 498160, updated on 5-Mar-2024

Summary

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Official Symbol
Zkscan1provided by RGD
Official Full Name
zinc finger with KRAB and SCAN domains 1provided by RGD
Primary source
RGD:1560616
See related
Ensembl:ENSRNOG00000001335 AllianceGenome:RGD:1560616
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
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 located in nucleus. Orthologous to human ZKSCAN1 (zinc finger with KRAB and SCAN domains 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Kidney (RPKM 178.9), Lung (RPKM 126.4) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Zkscan1 in Genome Data Viewer
Location:
12q11
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (22080319..22101389)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (16966287..16987680)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (19231092..19247393)

Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene alpha-2-glycoprotein 1, zinc-binding Neighboring gene ribosomal protein L34, pseudogene 3 Neighboring gene elongin C like 1 Neighboring gene zinc finger and SCAN domain containing 21 Neighboring gene NHP2-like protein 1 pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
  2. 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
  3. 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

General gene information

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Markers

Homology

Clone Names

  • MGC116363

Gene Ontology Provided by RGD

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
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
zinc finger protein with KRAB and SCAN domains 1
Names
zinc finger protein 36 (KOX 18)

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_001025760.1 → NP_001020931.1  zinc finger protein with KRAB and SCAN domains 1

    See identical proteins and their annotated locations for NP_001020931.1

    Status: PROVISIONAL

    Source sequence(s)
    BC099191
    UniProtKB/Swiss-Prot
    Q4KLI1
    UniProtKB/TrEMBL
    A6KSS2
    Related
    ENSRNOP00000051042.3, ENSRNOT00000045379.4
    Conserved Domains (7) summary
    smart00431
    Location:52 → 162
    SCAN; leucine rich region
    COG5048
    Location:355 → 536
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:406 → 426
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:376 → 398
    zf-C2H2; Zinc finger, C2H2 type
    pfam01352
    Location:226 → 264
    KRAB; KRAB box
    pfam02023
    Location:52 → 129
    SCAN; SCAN domain
    pfam13465
    Location:474 → 499
    zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086030.1 Reference GRCr8

    Range
    22080319..22101389
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039089697.2 → XP_038945625.1  zinc finger protein with KRAB and SCAN domains 1 isoform X2

    Conserved Domains (1) summary
    cl02605
    Location:52 → 162
    SCAN; SCAN oligomerization domain

  2. XM_039089696.2 → XP_038945624.1  zinc finger protein with KRAB and SCAN domains 1 isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZS14
    Related
    ENSRNOP00000081334.1
    Conserved Domains (3) summary
    smart00431
    Location:52 → 162
    SCAN; leucine rich region
    COG5048
    Location:282 → 463
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:333 → 353
    ZF_C2H2; C2H2 Zn finger [structural motif]

RNA

  1. XR_005491663.2 RNA Sequence

  2. XR_005491664.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q4KLI1.1 GenPept UniProtKB/Swiss-Prot:Q4KLI1

Gene LinkOut

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