Gene detail

Detailed information of OS493_011706-T1 in Lophelia pertusa

Genomic Location: scaffold_30:335251...338847
NR annotation: KAJ7336501.1, hypothetical protein OS493_011706 [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)	OG0004784 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_011706-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan
IPR051973 all species →	Family	tRNA Anticodon Loop Methyltransferase Regulator	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	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_011706-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_011706-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

109TPM > 0

7Conditions

41.8Max TPM

10.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	13.85	26.38
polyp at pH7 6	18	18	17.99	32.10
coral polyp · control treatment	16	16	7.05	17.75
coral polyp · oil and dispersant treatment	16	15	3.71	9.35
coral polyp · oil treatment	16	16	7.79	13.75
coral polyp · dispersant treatment	16	16	3.33	13.15
Polyp	10	10	19.16	41.81

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	-	26.38
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.27
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.17
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.95
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.66
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.42
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.19
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.25
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.35
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.46
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.34
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.98
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.03
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.97
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.69
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.59
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.87
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.68
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.10
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.02
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.04
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.97
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.72
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.69
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.54
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.95
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.57
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.44
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.36
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.77
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.34
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.65
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.74
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.24
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.66
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.75
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.75
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.17
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.83
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.11
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.31
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.12
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.58
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.53
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.75
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.50
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.12
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.04
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.50
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.35
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.48
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.89
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.29
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.81
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.44
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.90
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.82
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.88
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.31
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.28
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.71
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.61
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.42
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.75
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.41
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.24
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.42
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.32
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.47
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.20
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.52
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.02
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.86
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.74
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.67
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.23
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.05
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.33
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.15
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.60
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.18
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.14
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.01
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.13
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.62
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.59
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.44
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.40
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.75
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.67
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.12
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.96
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.77
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.65
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	41.81
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	34.65
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	28.28
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	19.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	15.63
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	12.46
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	12.39
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	10.66
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.65
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.09

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.