Gene detail

Detailed information of OS493_040509-T1 in Lophelia pertusa

Genomic Location: scaffold_2385:1661...2731
NR annotation: KAJ7375545.1, hypothetical protein OS493_040509 [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
P54099	DNA polymerase subunit gamma-1 OS=Mus musculus OX=10090 GN=Polg PE=1 SV=3
Q9QYV8	DNA polymerase subunit gamma-1 OS=Rattus norvegicus OX=10116 GN=Polg PE=2 SV=1
P54098	DNA polymerase subunit gamma-1 OS=Homo sapiens OX=9606 GN=POLG PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002983 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18136 all species →	DNApol_Exo	DNA mitochondrial polymerase exonuclease domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002297 all species →	Family	DNA-directed DNA-polymerase, family A, mitochondria	Interproscan
IPR041336 all species →	Domain	DNA mitochondrial polymerase, exonuclease domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10267 all species →	DNA POLYMERASE SUBUNIT GAMMA-1	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:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0005760 all species →	Cellular Component	gamma DNA polymerase complex	Interproscan
GO:0006260 all species →	Biological Process	DNA replication	Interproscan
GO:0006264 all species →	Biological Process	mitochondrial DNA replication	Interproscan
GO:0008408 all species →	Molecular Function	3'-5' exonuclease activity	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_040509-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_040509-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

91TPM > 0

7Conditions

26.0Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	13	2.27	4.82
polyp at pH7 6	18	13	3.23	7.43
coral polyp · control treatment	16	15	2.21	5.15
coral polyp · oil and dispersant treatment	16	14	2.74	26.03
coral polyp · oil treatment	16	15	1.76	4.32
coral polyp · dispersant treatment	16	14	2.43	5.88
Polyp	10	7	1.26	2.81

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.82
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.77
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.00
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.50
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.49
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.33
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.89
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.81
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.48
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.43
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.41
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.24
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.79
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
SRR11359496	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
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.43
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.58
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.22
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.92
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.83
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.12
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.62
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.55
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.14
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.04
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.85
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.45
SRR11359500	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
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
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.15
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.12
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.26
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.21
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.15
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.01
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.87
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.53
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.14
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.23
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.18
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.17
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.88
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.82
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.66
SRR16705989	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	26.03
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.18
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.08
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.94
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.58
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.52
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.47
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.35
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.24
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.23
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.14
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.05
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.65
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.31
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.32
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.85
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.50
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.33
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.31
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.24
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.20
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.70
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.48
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.44
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.08
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.96
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.96
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.81
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.88
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.38
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.25
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.53
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.42
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.83
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.79
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.61
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.54
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.87
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.78
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.54
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.90
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.51
SRR16705953	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
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.81
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.62
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.55
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.24
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.31
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.75
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.28
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746669	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.