Gene detail

Detailed information of OS493_011707-T1 in Lophelia pertusa

Genomic Location: scaffold_30:338962...343953
NR annotation: KAJ7336502.1, hypothetical protein OS493_011707 [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)	OG0004531 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_011707-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR051973 all species →	Family	tRNA Anticodon Loop Methyltransferase Regulator	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14344 all species →	WD REPEAT PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0030488 all species →	Biological Process	tRNA methylation	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_011707-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_011707-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

16.1Max TPM

4.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.98	10.19
polyp at pH7 6	18	18	7.30	16.05
coral polyp · control treatment	16	16	4.06	10.44
coral polyp · oil and dispersant treatment	16	16	2.58	9.04
coral polyp · oil treatment	16	16	3.93	7.01
coral polyp · dispersant treatment	16	16	2.04	6.38
Polyp	10	10	4.38	6.58

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.19
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.11
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.13
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.01
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.74
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.31
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.26
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.75
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.15
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.46
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.96
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.53
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.84
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.71
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.31
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.09
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.70
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.05
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.47
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.13
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.94
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.23
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.94
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.80
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.55
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.31
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.70
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.51
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.35
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.95
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.79
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.14
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.03
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.38
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.20
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.44
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.40
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.65
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.56
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.48
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.39
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.75
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.62
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.02
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.86
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.71
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.55
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.26
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.15
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.11
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.01
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.04
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.42
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.01
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.73
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.61
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.44
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.19
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.18
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.03
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.84
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.79
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.51
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.42
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.08
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.03
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.94
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.01
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.58
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.22
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.18
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.48
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.48
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.03
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.64
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.22
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.05
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.98
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.86
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.26
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.04
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.38
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.20
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.71
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.32
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.32
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.05
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.91
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.85
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.26
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.20
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.13
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.57
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.53
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.45
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.58
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.18
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.93
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.88
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.52
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.16
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.75
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.65
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.64
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.49

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.