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    Polk polymerase (DNA directed), kappa [ Mus musculus (house mouse) ]

    Gene ID: 27015, updated on 9-Dec-2024

    Summary

    Official Symbol
    Polkprovided by MGI
    Official Full Name
    polymerase (DNA directed), kappaprovided by MGI
    Primary source
    MGI:MGI:1349767
    See related
    Ensembl:ENSMUSG00000021668 AllianceGenome:MGI:1349767
    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
    DINP; Dinb1
    Summary
    Enables molecular adaptor activity. Acts upstream of or within DNA repair. Located in nucleus. Is expressed in several structures, including adrenal gland; eye; gonad; lung; and stomach. Orthologous to human POLK (DNA polymerase kappa). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in bladder adult (RPKM 3.8), testis adult (RPKM 3.6) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Polk in Genome Data Viewer
    Location:
    13 D1; 13 50.56 cM
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (96617195..96679087, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (96480687..96542579, complement)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_35344 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:97157941-97158317 Neighboring gene SNF8, ESCRT-II complex subunit, homolog pseudogene Neighboring gene POC5 centriolar protein Neighboring gene ankyrin repeat and death domain containing 1B Neighboring gene STARR-positive B cell enhancer ABC_E1884 Neighboring gene STARR-positive B cell enhancer ABC_E2418 Neighboring gene ceramide transporter 1 Neighboring gene predicted gene, 46436 Neighboring gene STARR-positive B cell enhancer ABC_E748 Neighboring gene 3-hydroxy-3-methylglutaryl-Coenzyme A reductase

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (3)  1 citation

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA-directed DNA polymerase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables DNA-directed DNA polymerase activity TAS
    Traceable Author Statement
    more info
    PubMed 
    enables damaged DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables molecular adaptor activity EXP
    Inferred from Experiment
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in DNA damage response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in DNA damage response ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within DNA repair IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in DNA repair ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in DNA repair ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in DNA replication IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to UV ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to UV ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in error-prone translesion synthesis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in error-prone translesion synthesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in error-prone translesion synthesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in nucleotide-excision repair, DNA gap filling IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in nucleotide-excision repair, DNA gap filling ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in nuclear body IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    colocalizes_with site of DNA damage ISO
    Inferred from Sequence Orthology
    more info
     
    colocalizes_with site of DNA damage ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    DNA polymerase kappa
    Names
    DINB protein
    DNA damage-inducible protein b
    DNA-directed DNA polymerase kappa
    DinB homolog 1
    NP_001334531.1
    NP_001334532.1
    NP_001334533.1
    NP_001334535.1
    NP_036178.1
    XP_006517743.1
    XP_030103145.1
    XP_036013953.1
    XP_036013954.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001347602.1NP_001334531.1  DNA polymerase kappa isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains lacks an alternate exon but contains a different in-frame exon in the central coding region, compared to variant a, resulting in an isoform (2) that is shorter than isoform a. The 5' UTR of this variant is incomplete because there are no 5'-complete transcripts representing it and there is splicing ambiguity at the 5' end.
      Source sequence(s)
      AC122828, AK014087, AK138299, BG060790, BG061549, BY707241, CN698108, DV656157, EH097080
      Consensus CDS
      CCDS84053.1
      UniProtKB/TrEMBL
      Q5Q9H7
      Related
      ENSMUSP00000088950.4, ENSMUST00000091387.4
      Conserved Domains (2) summary
      smart00734
      Location:561586
      ZnF_Rad18; Rad18-like CCHC zinc finger
      cd03586
      Location:103454
      PolY_Pol_IV_kappa; DNA Polymerase IV/Kappa
    2. NM_001347603.1NP_001334532.1  DNA polymerase kappa isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) contains lacks an alternate in-frame exon in the central coding region, compared to variant a, resulting in an isoform (3) that is shorter than isoform a. The 5' UTR of this variant is incomplete because there are no 5'-complete transcripts representing it and there is splicing ambiguity at the 5' end.
      Source sequence(s)
      AK014087, AK138299, BG060790, BG061549, BY707241, CN698108, DV656157, EH097080
      Consensus CDS
      CCDS88503.1
      UniProtKB/TrEMBL
      Q5Q9H6
      Related
      ENSMUSP00000152647.2, ENSMUST00000221899.2
      Conserved Domains (2) summary
      smart00734
      Location:540565
      ZnF_Rad18; Rad18-like CCHC zinc finger
      cd03586
      Location:103433
      PolY_Pol_IV_kappa; DNA Polymerase IV/Kappa
    3. NM_001347604.1NP_001334533.1  DNA polymerase kappa isoform 8

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) contains lacks an alternate in-frame exon in the 3' coding region, compared to variant a, resulting in an isoform (8) that is shorter than isoform a. The 5' UTR of this variant is incomplete because there are no 5'-complete transcripts representing it and there is splicing ambiguity at the 5' end.
      Source sequence(s)
      AK014087, AK138299, BG060790, BG061549, CN698108, DV656157, EH097080
      Consensus CDS
      CCDS88504.1
      UniProtKB/TrEMBL
      A0A1Y7VIV8, Q5Q9H1
      Related
      ENSMUSP00000152178.2, ENSMUST00000221645.2
    4. NM_001347606.1NP_001334535.1  DNA polymerase kappa isoform 9

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9) contains lacks an alternate in-frame exon in both the central and 3' coding regions, compared to variant a, resulting in an isoform (9) that is shorter than isoform a. The 5' UTR of this variant is incomplete because there are no 5'-complete transcripts representing it and there is splicing ambiguity at the 5' end.
      Source sequence(s)
      AK014087, AK138299, BG060790, BG061549, CN698108, DV656157, EH097080
      Consensus CDS
      CCDS88502.1
      UniProtKB/TrEMBL
      Q5Q9H0, Q5Q9H1
      Related
      ENSMUSP00000152192.2, ENSMUST00000222389.2
    5. NM_012048.3NP_036178.1  DNA polymerase kappa isoform a

      See identical proteins and their annotated locations for NP_036178.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (a) represents the longest transcript and encodes the longest isoform (a).
      Source sequence(s)
      AK014087, AK042272, AK138299, BG060790, BG061549, BY707241, CN698108, DV656157, EH097080
      Consensus CDS
      CCDS26704.1
      UniProtKB/Swiss-Prot
      Q7TPY7, Q9QUG2
      Related
      ENSMUSP00000022172.5, ENSMUST00000022172.12
      Conserved Domains (3) summary
      smart00734
      Location:620645
      ZnF_Rad18; Rad18-like CCHC zinc finger
      cd03586
      Location:103513
      PolY_Pol_IV_kappa; DNA Polymerase IV/Kappa
      PRK02406
      Location:107521
      PRK02406; DNA polymerase IV; Validated

    RNA

    1. NR_144622.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) uses an alternate splice site in the 3' region, compared to variant a. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant a, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD). The 5' end of this variant is incomplete because there are no 5'-complete transcripts representing it and there is splicing ambiguity at the 5' end.
      Source sequence(s)
      AK014087, AK138299, BG060790, BG061549, BY707241, CN698108, DV656157, EH097080
    2. NR_144623.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an alternate exon in the central region and uses an alternate splice site in the 3' region, compared to variant a. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant a, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD). The 5' end of this variant is incomplete because there are no 5'-complete transcripts representing it and there is splicing ambiguity at the 5' end.
      Source sequence(s)
      AK014087, AK138299, BG060790, BG061549, BY707241, CN698108, DV656157, EH097080
    3. NR_144624.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) lacks three alternate exons in the central region, compared to variant a. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant a, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD). The 5' end of this variant is incomplete because there are no 5'-complete transcripts representing it and there is splicing ambiguity at the 5' end.
      Source sequence(s)
      AK014087, AK138299, BG060790, BG061549, BY707241, CN698108, DV656157, EH097080
    4. NR_144625.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) lacks three alternate exons in the central region, compared to variant a. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant a, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD). The 5' end of this variant is incomplete because there are no 5'-complete transcripts representing it and there is splicing ambiguity at the 5' end.
      Source sequence(s)
      AK014087, AK138299, BG060790, BG061549, BY707241, CN698108, DV656157, EH097080

    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
      96617195..96679087 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036158060.1XP_036013953.1  DNA polymerase kappa isoform X3

      UniProtKB/TrEMBL
      Q5Q9H6
      Conserved Domains (2) summary
      smart00734
      Location:540565
      ZnF_Rad18; Rad18-like CCHC zinc finger
      cd03586
      Location:103433
      PolY_Pol_IV_kappa; DNA Polymerase IV/Kappa
    2. XM_030247285.1XP_030103145.1  DNA polymerase kappa isoform X1

      UniProtKB/TrEMBL
      Q5Q9H7
      Conserved Domains (2) summary
      smart00734
      Location:561586
      ZnF_Rad18; Rad18-like CCHC zinc finger
      cd03586
      Location:103454
      PolY_Pol_IV_kappa; DNA Polymerase IV/Kappa
    3. XM_006517680.5XP_006517743.1  DNA polymerase kappa isoform X2

      Conserved Domains (2) summary
      smart00734
      Location:555580
      ZnF_Rad18; Rad18-like CCHC zinc finger
      cd03586
      Location:38448
      PolY_Pol_IV_kappa; DNA Polymerase IV/Kappa
    4. XM_036158061.1XP_036013954.1  DNA polymerase kappa isoform X4

      Conserved Domains (2) summary
      smart00734
      Location:531556
      ZnF_Rad18; Rad18-like CCHC zinc finger
      cd03586
      Location:14424
      PolY_Pol_IV_kappa; DNA Polymerase IV/Kappa