Gene detail

Detailed information of OS493_034580-T1 in Lophelia pertusa

Genomic Location: scaffold_295:25956...27939
NR annotation: KAJ7388948.1, hypothetical protein OS493_034580 [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
Q9QYV8	DNA polymerase subunit gamma-1 OS=Rattus norvegicus OX=10116 GN=Polg PE=2 SV=1
P54099	DNA polymerase subunit gamma-1 OS=Mus musculus OX=10090 GN=Polg PE=1 SV=3
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_034580-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_034580-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

104TPM > 0

7Conditions

15.9Max TPM

3.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	3.12	5.72
polyp at pH7 6	18	17	3.99	7.28
coral polyp · control treatment	16	16	4.35	9.09
coral polyp · oil and dispersant treatment	16	16	2.31	5.57
coral polyp · oil treatment	16	15	3.27	5.98
coral polyp · dispersant treatment	16	15	4.28	15.95
Polyp	10	9	1.51	3.12

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.72
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.03
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.84
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.56
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.53
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.37
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.30
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.66
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.98
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.96
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.87
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.75
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.63
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.57
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.29
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.07
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	-	7.28
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.99
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.97
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.29
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.94
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.63
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.17
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.04
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.79
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.75
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.74
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.30
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.21
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.75
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.60
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.82
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.58
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.09
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.44
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.18
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.08
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.52
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.29
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.85
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.53
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.46
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.22
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.43
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.94
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.93
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.77
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.24
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.57
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.16
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.48
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.46
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.99
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.52
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.49
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.01
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.81
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.80
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.53
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.29
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.16
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.12
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.42
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.98
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.74
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.75
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.42
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.27
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.74
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.38
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.24
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.10
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.96
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.88
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.42
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.05
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.69
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.64
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.95
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.16
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.74
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.01
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.69
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.55
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.32
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.30
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.17
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.04
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.87
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.47
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.74
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.31
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.12
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.55
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.11
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.92
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.44
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.35
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.24
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.78
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.55
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.