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

Gene ID: 27015, updated on 5-Jan-2023

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
Predicted to enable DNA-directed DNA polymerase 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, Apr 2022]
Expression
Broad expression in bladder adult (RPKM 3.8), testis adult (RPKM 3.6) and 25 other tissues See more
Orthologs
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Genomic context

See Polk in Genome Data Viewer
Location:
13; 13 D1
Exon count:
17
Annotation release Status Assembly Chr Location
109 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 SNF8, ESCRT-II complex subunit, homolog pseudogene Neighboring gene POC5 centriolar protein Neighboring gene ankyrin repeat and death domain containing 1B Neighboring gene ceramide transporter 1 Neighboring gene predicted gene, 46436 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)
  • Targeted (3)  1 citation
  • Endonuclease-mediated (2) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA-directed DNA polymerase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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 nucleotidyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
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
 
acts_upstream_of_or_within DNA replication IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to DNA damage stimulus ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to UV ISO
Inferred from Sequence Orthology
more info
 
involved_in error-prone translesion synthesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in error-prone translesion synthesis ISO
Inferred from Sequence Orthology
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 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
PubMed 
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
 

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)

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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_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
    Q3UUL1, Q5Q9H7, Q9CRV6
    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
    Q3UUL1, Q5Q9H6, Q9CRV6
    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, Q3UUL1, Q9CRV6
    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
    Q3UUL1, Q5Q9H0, Q9CRV6
    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
    UniProtKB/TrEMBL
    Q3UUL1, Q9CRV6
    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: Mus musculus Annotation Release 109 details...Open this link in a new tab

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