Gene detail

Detailed information of OS493_038912-T1 in Lophelia pertusa

Genomic Location: scaffold_794:9601...24997
NR annotation: KAJ7381807.1, hypothetical protein OS493_038912 [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
Q9BE97	Aryl hydrocarbon receptor nuclear translocator OS=Bos taurus OX=9913 GN=ARNT PE=1 SV=1
O15945	Aryl hydrocarbon receptor nuclear translocator homolog OS=Drosophila melanogaster OX=7227 GN=tgo PE=1 SV=3
P53762	Aryl hydrocarbon receptor nuclear translocator OS=Mus musculus OX=10090 GN=Arnt PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001412 (this species only)

Pfam domain

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

InterPro

InterPro term	Type	Description	Source
IPR035965 all species →	Homologous_superfamily	PAS domain superfamily	Interproscan
IPR011598 all species →	Domain	Myc-type, basic helix-loop-helix (bHLH) domain	Interproscan
IPR050933 all species →	Family	Circadian Clock Transcription Factors	Interproscan
IPR036638 all species →	Homologous_superfamily	Helix-loop-helix DNA-binding domain superfamily	Interproscan
IPR000014 all species →	Domain	PAS domain	Interproscan
IPR013767 all species →	Domain	PAS fold	Interproscan
IPR001067 all species →	Family	Nuclear translocator	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0046983 all species →	Molecular Function	protein dimerization activity	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
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0005667 all species →	Cellular Component	transcription regulator complex	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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_038912-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_038912-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

107TPM > 0

7Conditions

17.3Max TPM

6.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.09	10.79
polyp at pH7 6	18	17	7.42	17.28
coral polyp · control treatment	16	16	6.63	13.24
coral polyp · oil and dispersant treatment	16	16	6.33	10.74
coral polyp · oil treatment	16	16	5.72	9.71
coral polyp · dispersant treatment	16	16	4.91	10.08
Polyp	10	8	2.29	6.07

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.79
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.04
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.99
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.62
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.61
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.42
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.38
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.04
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.91
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.86
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.51
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.27
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.97
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.83
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.15
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.80
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.32
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.08
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.28
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.75
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.80
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.49
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.91
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.15
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.68
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.15
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.05
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.04
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.95
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.41
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.19
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.74
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.33
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.17
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.24
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.24
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.81
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.53
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.15
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.10
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.70
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.37
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.18
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.04
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.46
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.43
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.28
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.60
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.33
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.74
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.73
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.11
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.86
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.92
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.37
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.59
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.59
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.49
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.03
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.57
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.36
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.23
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.77
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.21
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.74
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.71
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.18
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.10
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.41
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.15
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.02
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.24
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.28
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.11
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.81
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.58
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.16
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.98
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.08
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.39
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.76
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.23
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.25
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.73
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.82
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.33
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.51
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.27
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.07
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.80
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.67
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.36
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.67
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.65
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.07
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.79
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.04
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.88
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.69
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.52
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.48
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.42
SRR7746667	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.