Gene detail

Detailed information of OS493_011168-T1 in Lophelia pertusa

Genomic Location: scaffold_28:1116617...1118137
NR annotation: KAJ7373565.1, hypothetical protein OS493_011168 [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)	OG0010151 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_011168-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR036915 all species →	Homologous_superfamily	Cyclin-like superfamily	Interproscan
IPR000812 all species →	Family	Transcription factor TFIIB	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11618 all species →	TRANSCRIPTION INITIATION FACTOR IIB-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006352 all species →	Biological Process	DNA-templated transcription initiation	Interproscan
GO:0017025 all species →	Molecular Function	TBP-class protein binding	Interproscan
GO:0070897 all species →	Biological Process	transcription preinitiation complex assembly	Interproscan
GO:0097550 all species →	Cellular Component	transcription preinitiation complex	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_011168-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_011168-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

31.0Max TPM

3.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.68	6.50
polyp at pH7 6	18	18	4.03	6.18
coral polyp · control treatment	16	16	4.88	20.59
coral polyp · oil and dispersant treatment	16	16	4.56	31.04
coral polyp · oil treatment	16	16	3.52	6.76
coral polyp · dispersant treatment	16	16	2.28	4.95
Polyp	10	10	2.60	4.29

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.50
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.03
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.97
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.85
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.21
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.95
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.85
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.74
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.56
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.40
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.36
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.29
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.02
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.97
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.70
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.38
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.18
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.26
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.22
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.68
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.44
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.33
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.12
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.89
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.73
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.70
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.57
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.44
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.40
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.36
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.26
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.01
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.59
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.68
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.33
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.29
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.18
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.11
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.73
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.66
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.54
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.52
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.49
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.09
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.75
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.46
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.04
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.56
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.47
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.45
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.58
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.56
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.05
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.47
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.34
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.09
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.04
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.70
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.67
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.86
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.76
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.15
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.41
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.35
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.97
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.78
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.77
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.75
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.59
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.42
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.36
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.23
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.79
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.70
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.50
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.77
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.95
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.40
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.80
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.41
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.94
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.84
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.61
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.29
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.05
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.79
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.53
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.99
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.93
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.89
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.78
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.28
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.29
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.52
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.42
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.15
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.99
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.70
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.15
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.89
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.11
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.74

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.