Gene detail

Detailed information of OS493_027440-T1 in Lophelia pertusa

Genomic Location: scaffold_149:760457...763368
NR annotation: KAJ7356043.1, choline dehydrogenase 7 [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)	OG0003645 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07533 all species →	BRK	BRK domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037259 all species →	Homologous_superfamily	BRK domain superfamily	Interproscan
IPR006576 all species →	Domain	BRK domain	Interproscan

PANTHER

No PANTHER signature was detected for OS493_027440-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	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_027440-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_027440-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

110TPM > 0

7Conditions

116.9Max TPM

27.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	19.57	29.73
polyp at pH7 6	18	18	21.47	27.64
coral polyp · control treatment	16	16	39.21	116.94
coral polyp · oil and dispersant treatment	16	16	37.37	100.74
coral polyp · oil treatment	16	16	29.65	40.60
coral polyp · dispersant treatment	16	16	25.13	50.72
Polyp	10	10	15.27	26.73

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.73
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.02
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.91
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.95
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.64
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.06
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.93
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.91
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.48
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.33
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.82
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.43
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.55
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.23
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.27
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.61
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.55
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.81
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.64
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.25
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.10
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.26
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.11
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.50
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.23
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.14
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.95
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.53
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.40
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.19
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.75
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.88
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.41
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.29
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.92
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.91
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	116.94
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.75
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.32
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.24
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.94
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.91
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.24
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.50
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.18
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.42
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.31
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.17
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.20
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.72
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.96
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	100.74
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.19
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.99
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.81
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.18
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.60
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.25
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.02
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.08
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.42
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.42
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.41
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.29
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.91
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.08
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.57
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.60
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.46
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.52
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.21
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.30
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.31
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.84
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.68
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.96
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.93
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.23
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.09
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.91
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.75
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.13
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.45
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.72
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.46
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.06
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.34
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.84
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.06
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.81
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.31
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.94
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.59
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.37
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.26
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.41
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.30
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.07
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.73
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.52
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	20.35
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	19.64
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	15.11
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.64
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	11.52
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.08
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.01
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.12

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.