Gene detail

Detailed information of OS493_019914-T1 in Lophelia pertusa

Genomic Location: scaffold_71:1044838...1045460
NR annotation: KAJ7359007.1, hypothetical protein OS493_019914 [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)	OG0002065 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14493 all species →	HTH_40	Helix-turn-helix domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029491 all species →	Domain	Helicase Helix-turn-helix domain	Interproscan

PANTHER

No PANTHER signature was recorded for OS493_019914-T1 in Lophelia pertusa.

Gene Ontology

No Gene Ontology signature was recorded for OS493_019914-T1 in Lophelia pertusa.

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_019914-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_019914-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

97TPM > 0

7Conditions

8.6Max TPM

1.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	1.46	2.66
polyp at pH7 6	18	14	1.37	3.70
coral polyp · control treatment	16	13	1.62	3.99
coral polyp · oil and dispersant treatment	16	16	1.77	5.51
coral polyp · oil treatment	16	15	1.77	4.13
coral polyp · dispersant treatment	16	14	0.48	1.29
Polyp	10	8	1.46	8.60

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	-	2.66
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.17
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.10
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.82
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.80
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.80
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.60
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.59
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.58
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.52
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.45
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.41
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.37
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.25
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.04
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.62
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.44
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.70
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.23
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.21
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.20
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.12
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.95
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.87
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.85
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.82
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.68
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.40
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.95
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.36
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.30
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.99
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.44
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.11
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.21
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.18
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.08
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.97
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.88
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.48
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.38
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.88
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.65
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.59
SRR16705957	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
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	5.51
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.97
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.11
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.91
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.43
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.32
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.84
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.65
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.22
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.06
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.87
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.67
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.34
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.22
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.12
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.08
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.13
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.62
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.95
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.82
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.70
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.58
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.52
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.66
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.60
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.36
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.87
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.73
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.46
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.34
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.03
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.27
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.07
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.90
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.84
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.82
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.44
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.37
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.24
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.20
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.10
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.08
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.05
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.05
SRR16705956	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
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.60
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.93
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.70
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.90
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.71
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.18
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.12
SRR23025710	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.