Gene detail

Detailed information of OS493_017834-T1 in Lophelia pertusa

Genomic Location: scaffold_57:2251248...2269452
NR annotation: KAJ7379321.1, hypothetical protein OS493_017834 [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)

UniProt accession	Description
Q95LD9	Aryl hydrocarbon receptor OS=Delphinapterus leucas OX=9749 GN=AHR PE=2 SV=1
P35869	Aryl hydrocarbon receptor OS=Homo sapiens OX=9606 GN=AHR PE=1 SV=2
Q8R4S2	Aryl hydrocarbon receptor OS=Mus spretus OX=10096 GN=Ahr PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006413 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00989 all species →	PAS	PAS fold	Domain	Interproscan
PF00010 all species →	HLH	Helix-loop-helix DNA-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000014 all species →	Domain	PAS domain	Interproscan
IPR013767 all species →	Domain	PAS fold	Interproscan
IPR036638 all species →	Homologous_superfamily	Helix-loop-helix DNA-binding domain superfamily	Interproscan
IPR011598 all species →	Domain	Myc-type, basic helix-loop-helix (bHLH) domain	Interproscan
IPR035965 all species →	Homologous_superfamily	PAS domain superfamily	Interproscan
IPR001067 all species →	Family	Nuclear translocator	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23043 all species →	HYPOXIA-INDUCIBLE FACTOR 1 ALPHA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0046983 all species →	Molecular Function	protein dimerization activity	Interproscan
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005667 all species →	Cellular Component	transcription regulator complex	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0000977 all species →	Molecular Function	RNA polymerase II transcription regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	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_017834-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_017834-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

95TPM > 0

7Conditions

31.4Max TPM

2.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	2.33	3.79
polyp at pH7 6	18	12	1.61	4.05
coral polyp · control treatment	16	16	4.53	31.36
coral polyp · oil and dispersant treatment	16	16	3.89	23.93
coral polyp · oil treatment	16	16	2.61	4.80
coral polyp · dispersant treatment	16	14	1.59	4.96
Polyp	10	6	1.05	2.21

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.48
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.37
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.33
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.32
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.04
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.75
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.61
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.57
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.33
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.72
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.51
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
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	-	4.05
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.65
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.23
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.90
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.52
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.25
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.18
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.17
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.80
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.78
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.72
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.79
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.36
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.33
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.63
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.48
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.46
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.27
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.12
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.06
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.01
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.90
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.57
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.25
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.22
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.83
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.18
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.74
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.93
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.62
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.93
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.86
SRR16705979	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	3.63
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.80
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.66
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.57
SRR16705996	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	2.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.91
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.67
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.59
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.61
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.38
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.80
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.67
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.71
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.36
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.12
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.79
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.65
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.62
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.49
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.39
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.05
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.90
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.45
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.19
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.43
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.96
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.33
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.64
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.23
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.92
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.73
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.66
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.30
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.17
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.16
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.04
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.65
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.29
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.21
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.15
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.02
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.70
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.65
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.78
SRR23025712	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.