Gene detail

Detailed information of OS493_010268-T1 in Lophelia pertusa

Genomic Location: scaffold_25:517791...520708
NR annotation: KAJ7392617.1, hypothetical protein OS493_010268 [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)	OG0001664 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05593 all species →	RHS_repeat	RHS Repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR022385 all species →	Domain	Rhs repeat-associated core	Interproscan
IPR031325 all species →	Repeat	RHS repeat	Interproscan
IPR006530 all species →	Repeat	YD repeat	Interproscan
IPR050708 all species →	Family	Type VI secretion system VgrG/RHS	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR32305 all species →	-	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_010268-T1. This gene does have a gene model — the search simply returned no hit.

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_010268-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_010268-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

101TPM > 0

7Conditions

24.8Max TPM

6.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.26	11.54
polyp at pH7 6	18	16	6.80	23.29
coral polyp · control treatment	16	16	6.60	17.77
coral polyp · oil and dispersant treatment	16	14	5.67	16.31
coral polyp · oil treatment	16	15	6.96	20.41
coral polyp · dispersant treatment	16	16	5.33	13.90
Polyp	10	6	3.55	24.82

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.54
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.92
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.54
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.19
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.55
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.16
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.47
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.97
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.70
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.11
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.10
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.02
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.95
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.91
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.40
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.91
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.15
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.29
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.77
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.21
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.27
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.23
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.88
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.64
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.36
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.12
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.44
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.01
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.95
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.59
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.77
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.62
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.28
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
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.77
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.87
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.21
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.60
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.27
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.42
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.03
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.39
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.91
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.41
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.08
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.38
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.36
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.88
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.68
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.36
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.31
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.62
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.87
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.53
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.44
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.32
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.84
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.48
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.49
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.14
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.67
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.68
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.36
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.41
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.41
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.15
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.60
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.37
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.76
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.35
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.13
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.30
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.18
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.30
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.22
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.68
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.90
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.43
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.18
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.69
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.84
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.32
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.32
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.62
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.56
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.91
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.51
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.40
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.14
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.66
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.41
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.34
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	24.82
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.73
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.60
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.23
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.85
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.00
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.