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

    Gene ID: 498160, updated on 27-Nov-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
    EnsemblRapid: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, Nov 2024]
    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, ENSRNOT00000045379.5
      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, ENSRNOT00000099099.2
      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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
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