Gene detail

Detailed information of OS493_002756-T1 in Lophelia pertusa

Genomic Location: scaffold_5:7522725...7524790
NR annotation: KAJ7366014.1, hypothetical protein OS493_002756 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O75417	DNA polymerase theta OS=Homo sapiens OX=9606 GN=POLQ PE=1 SV=2
Q8CGS6	DNA polymerase theta OS=Mus musculus OX=10090 GN=Polq PE=1 SV=2
Q588V7	Helicase and polymerase-containing protein TEBICHI OS=Arabidopsis thaliana OX=3702 GN=TEB PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004235 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00476 all species →	DNA_pol_A	DNA polymerase family A	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001098 all species →	Domain	DNA-directed DNA polymerase, family A, palm domain	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR019760 all species →	Conserved_site	DNA-directed DNA polymerase, family A, conserved site	Interproscan
IPR002298 all species →	Family	DNA polymerase A	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10133 all species →	DNA POLYMERASE I	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003887 all species →	Molecular Function	DNA-directed DNA polymerase activity	Interproscan
GO:0006260 all species →	Biological Process	DNA replication	Interproscan
GO:0006261 all species →	Biological Process	DNA-templated DNA replication	Interproscan
GO:0006302 all species →	Biological Process	double-strand break repair	Interproscan
GO:0097681 all species →	Biological Process	double-strand break repair via alternative nonhomologous end joining	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

No KEGG orthology assignment for OS493_002756-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_002756-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

73TPM > 0

7Conditions

17.5Max TPM

0.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	11	0.32	0.98
polyp at pH7 6	18	9	0.15	0.76
coral polyp · control treatment	16	10	1.20	17.53
coral polyp · oil and dispersant treatment	16	11	0.99	13.50
coral polyp · oil treatment	16	11	0.15	0.45
coral polyp · dispersant treatment	16	13	0.12	0.29
Polyp	10	8	0.31	1.28

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.98
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.82
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.82
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.70
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.64
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.62
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.33
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.28
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.27
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.24
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.12
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.76
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.74
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.29
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.18
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.15
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.14
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.13
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.13
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.10
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.53
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.33
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.29
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.24
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.22
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.20
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.16
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.08
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.08
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.08
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.50
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.51
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.43
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.28
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.27
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.20
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.18
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.17
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.14
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.08
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.05
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.45
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.35
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.32
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.25
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.25
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.23
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.22
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.09
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.08
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.08
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.08
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.29
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.24
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.19
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.17
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.16
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.11
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.09
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.08
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.07
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.07
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.07
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.07
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.28
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.80
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.32
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.30
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.12
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.10
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.10
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.05
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.