Gene detail

Detailed information of OS493_026042-T1 in Lophelia pertusa

Genomic Location: scaffold_131:1075489...1078687
NR annotation: KAJ7356283.1, hypothetical protein OS493_026042 [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)	OG0008377 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00989 all species →	PAS	PAS fold	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000014 all species →	Domain	PAS domain	Interproscan
IPR035965 all species →	Homologous_superfamily	PAS domain superfamily	Interproscan
IPR013767 all species →	Domain	PAS fold	Interproscan
IPR050933 all species →	Family	Circadian Clock Transcription Factors	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23042 all species →	CIRCADIAN PROTEIN CLOCK/ARNT/BMAL/PAS	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0034751 all species →	Cellular Component	aryl hydrocarbon receptor 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_026042-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_026042-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

100TPM > 0

7Conditions

19.1Max TPM

4.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	3.93	6.52
polyp at pH7 6	18	15	4.50	7.94
coral polyp · control treatment	16	16	5.96	10.17
coral polyp · oil and dispersant treatment	16	16	4.60	19.15
coral polyp · oil treatment	16	15	4.17	11.29
coral polyp · dispersant treatment	16	14	3.23	5.80
Polyp	10	8	1.06	3.29

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.52
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.47
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.03
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.47
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.08
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.05
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.03
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.59
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.01
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.75
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.61
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.29
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.07
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.99
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.93
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.94
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.91
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.80
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.79
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.86
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.62
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.86
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.20
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.88
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.88
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.87
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.45
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.63
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.22
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.06
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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	10.17
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.97
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.20
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.78
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.47
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.44
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.56
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.55
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.23
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.99
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.88
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.85
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.65
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.60
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.47
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.52
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.15
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.89
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.33
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.21
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.78
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.39
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.11
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.91
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.62
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.83
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.13
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.97
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.60
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.41
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.29
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.19
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.10
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.77
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.47
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.95
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.71
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.58
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.16
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.07
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.98
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.35
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.35
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.24
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.80
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.54
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.38
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.77
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.72
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.24
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.74
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.52
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.39
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.73
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.50
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.14
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.88
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.40
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.29
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.59
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.56
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.12
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.99
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.75
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.73
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.60
SRR23025712	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.