Gene detail

Detailed information of ENSTIFP00000012918.1 in Montipora efflorescens

Genomic Location: BLFP01001323.1:1442883...1446065
NR annotation: XP_029189546.2, DNA polymerase kappa-like [Acropora millepora]
Species Montipora efflorescens · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSTIFT00000013852

ATGGCTGCATTATCTCATTCATATTTCGGGAAGGAAGAAATCTCCGATGATTTTGAAGTCTTGGAAGCCGAGGACGACGATTCTGTCGATTGGACTGAAATATTTAGTGCACCTGAGAGTAATGCCGATGGGAATATCCCATCAAATGTAGGAGATTTTAACAAATCACACAATCACTTCGGGCAAAATCAAATGGTTGTTGACaaagacgaaaagaaaaatactgACAGCACACAAAGCCTCAAAAGAATGGAGTTGAATGATCACAAAGCAGGAATGGTGGGTCttgataaagaaaaaataaaccaaATCATATTTGAAGCCAGCAAAGGTTCAAGGTTCTACgagaatgaaatgaagaaagaaaaacaagtggcCGAGAGGATAAGAAAACAAAGCGCCTGTCTCCAAAAAATCAATGAAGAACAGAGACATGAAGCATTACAGACCACAGATTTAATCGTaagagaactcgaaaaagctcgTGATTTACGCCGTACCTTCGTTCATATTGACATGGACGCTTTCTATGCAGCGGTTGAAATCTTGGACAACCCTTTATTGCGTGACAAACCAATGGCTGTTGGAGGTAATGCAATGTTATCAACATCAAATTACCCTGCAAGGCGTTACGGCGTCAGAGCTGCTATGCCAGGGTTCATAGCTAAGAAGTTGTGTCCTGACCTTGTCATTGTACCACCTCACTTCGAAAAATACAAGGAATACAGTCGCCAAGTGCAAGAAGTCTTAGTTGAGTACGATCGTAATTTTGTTATGGCTAGTTTAGATGAAGCATATTTGGATCTGACTGAAGTCCTCAAAGAGAGACAAAAAAAGGCGGAGAAAAGAACCTTTAGAAAAGAGCAAAGGGATGCCGTTGAACAAGGAACTTGTGAAATGTCAGCTGATGCAATTGTGGAATTTGGCAATGACGCCGAAGAAGTAGTGAAGGAATTGCGTTTTCGAATTGAACAGAAAACTCGCCTTACAGCAAGTGCTGGAATCGCGCCAAATGTTTTGCTTGCAAAAGTCTGCTCAGATCGTAACAAACCCAATGGACAGTTTCTGTTGAAGCCAGACCGCCAGGTTGTATTAGACTTTGTTCACGCGCTCCCTATCAGGAAAGTAAGTGGAATTGGCAGAGTCAGCGAACAAATGCTCAAAGCTTTGGGAATAGAGACCTGCGGAGACCTGTTCGCAAAGCGAGACCTGCTCTATCTCCTGCATTCTCCGGTCAGCTTTAAATTCTTGATACGAGTTTCTCTTGGTCTTGGAAACACTTCAATAGCCACTGATTCCAAAAGGAAGAGCATTGGAACGGAGATAACTTTTCCAGAGATGAGCAAACCAGAGGAGTTACTTGACATGTGTGATAAGCTGTGTCAGTCATTGGCAGAGGATatgaaaaaggagaaacttAAAGGAAAAACCGTCACCATAAAACTGAAGACTGTCAACTTTGAAGTAAAATCACGATCTTTGTCTCCACTGAATCCCGTTTCTACGTACGGTGAAATTGCTTTAGCAGCGAAGGAGCTGCTGaaacatgaaataaatgtatgctCTCCTGATCCTCTCAAACTTCGCCTCATGGGAGTTCGCTTGTCGAACTTCCAAGATAGCATTTCTGATTCTTCGAAAGACGGAAGACAGAACACAATTAAAGGGTTCTTGAGACCACAGGAGAGCGTAGCCACGAAAGAAACTCCTTATTGTGCTgcacaaacaaagaaattgaaCTTGGAGGAACTTTCGACTGTTAAGATACCTGTCAATGAAACCTTCACTGAAGTTGACACTTCAGTGGTAGCTTCTTTAACTTCTCCCTCGACACATGAAAATGACTCGTATGAATTTGAGTCGTCGTCTTCTAGTGCGATTGGGGTAAATTTGTCAGGGTTGCCCTCGTCTGCATTAGCACTTAATTGTCCGGTGTGTGGACAAAAGCAGTTGACTAAACCGGGTGAAGATGCCATGATTGAATTGAACAAGCACATTGACTTATGCCTGAACAAGTCGACCATCAGGGAGATTGTATCAGAGAATAACAAATcacaatcaagtgaagctattgtGAACATTGCCTGTTCTTCTGATCAATTGAAGGTCGCAGAGACACGGAACAACGGGGGGAAGAGAAAGCGGCAGCAATCAGGTGCAGCAATGTCAAAGAAAGCAACGCTTTATTCTTTCTGGTCGCAATAA

Transcript

ENSTIFT00000013852

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9UBT6	DNA polymerase kappa OS=Homo sapiens OX=9606 GN=POLK PE=1 SV=1
Q9QUG2	DNA polymerase kappa OS=Mus musculus OX=10090 GN=Polk PE=1 SV=1
Q6JDV7	DNA polymerase kappa OS=Arabidopsis thaliana OX=3702 GN=POLK PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006695 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF11799 all species →	IMS_C	impB/mucB/samB family C-terminal domain	Domain	Interproscan
PF00817 all species →	IMS	impB/mucB/samB family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR043128 all species →	Homologous_superfamily	Reverse transcriptase/Diguanylate cyclase domain	Interproscan
IPR001126 all species →	Domain	UmuC domain	Interproscan
IPR036775 all species →	Homologous_superfamily	DNA polymerase, Y-family, little finger domain superfamily	Interproscan
IPR017961 all species →	Domain	DNA polymerase, Y-family, little finger domain	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR050116 all species →	Family	DNA polymerase type-Y	Interproscan
IPR022880 all species →	Family	DNA polymerase IV	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11076 all species →	DNA REPAIR POLYMERASE UMUC / TRANSFERASE FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0003684 all species →	Molecular Function	damaged DNA binding	Interproscan
GO:0003887 all species →	Molecular Function	DNA-directed DNA polymerase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0042276 all species →	Biological Process	error-prone translesion synthesis	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K03511	POLK; DNA polymerase kappa	EC:2.7.7.7	DNA repair and recombination proteins	ko03400	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Co-expression network

Genes whose expression across the transcriptome samples of Montipora efflorescens tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Montipora efflorescens, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →