Gene detail

Detailed information of OS493_023350-T1 in Lophelia pertusa

Genomic Location: scaffold_103:284024...285378
NR annotation: KAJ7390639.1, hypothetical protein OS493_023350 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004772 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09507 all species →	CDC27	DNA polymerase subunit Cdc27	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019038 all species →	Family	DNA polymerase delta subunit 3	Interproscan

PANTHER

No PANTHER signature was detected for OS493_023350-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006260 all species →	Biological Process	DNA replication	Interproscan
GO:0043625 all species →	Cellular Component	delta DNA polymerase complex	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_023350-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_023350-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

108TPM > 0

7Conditions

84.8Max TPM

14.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	15.18	27.98
polyp at pH7 6	18	18	17.19	32.85
coral polyp · control treatment	16	16	16.31	84.80
coral polyp · oil and dispersant treatment	16	16	11.37	67.63
coral polyp · oil treatment	16	16	13.68	24.30
coral polyp · dispersant treatment	16	16	11.40	21.31
Polyp	10	9	21.40	46.42

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.98
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.68
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.49
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.42
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.15
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.15
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.17
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.13
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.11
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.35
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.86
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.50
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.69
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.81
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.89
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.58
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.21
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.85
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.94
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.44
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.12
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.61
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.64
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.41
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.18
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.95
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.07
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.06
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.37
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.06
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.33
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.96
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.72
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.80
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.66
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.10
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.52
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.61
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.13
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.87
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.57
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.02
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.97
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.82
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.28
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.97
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.96
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.31
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.63
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.30
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.66
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.42
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.43
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.41
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.31
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.46
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.92
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.20
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.74
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.59
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.80
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.22
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.20
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.57
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.30
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.51
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.60
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.27
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.34
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.31
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.98
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.84
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.37
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.11
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.22
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.18
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.85
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.61
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.56
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.80
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.31
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.32
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.79
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.70
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.57
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.20
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.41
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.45
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.28
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.15
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.63
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.76
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.01
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.07
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.99
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.83
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	46.42
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	35.13
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	30.55
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	26.30
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	21.66
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	17.15
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	14.56
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	13.02
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	9.26
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.