Gene detail

Detailed information of OS493_018240-T1 in Lophelia pertusa

Genomic Location: scaffold_60:543227...548017
NR annotation: KAJ7333071.1, hypothetical protein OS493_018240 [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)	OG0007365 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04814 all species →	HNF-1_N	Hepatocyte nuclear factor 1 (HNF-1), N terminus	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR010982 all species →	Homologous_superfamily	Lambda repressor-like, DNA-binding domain superfamily	Interproscan
IPR006899 all species →	Domain	Hepatocyte nuclear factor 1, N-terminal	Interproscan
IPR044869 all species →	Domain	HNF-1, POU-specific (POUs) atypical domain	Interproscan

PANTHER

No PANTHER signature was detected for OS493_018240-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0045893 all species →	Biological Process	positive regulation of DNA-templated transcription	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_018240-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_018240-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

106TPM > 0

7Conditions

44.6Max TPM

12.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.92	37.44
polyp at pH7 6	18	16	11.34	33.70
coral polyp · control treatment	16	16	17.22	38.62
coral polyp · oil and dispersant treatment	16	15	14.23	44.62
coral polyp · oil treatment	16	16	14.20	35.96
coral polyp · dispersant treatment	16	16	12.67	34.60
Polyp	10	9	1.36	7.97

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.44
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.51
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.52
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.73
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.45
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.35
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.20
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.56
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.86
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.73
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.38
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.28
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.12
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.75
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.20
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.51
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.70
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.51
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.05
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.52
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.32
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.26
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.04
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.59
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.36
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.30
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.38
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.94
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.52
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.12
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.84
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.70
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.62
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.71
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.78
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.70
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.21
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.33
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.80
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.61
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.13
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.58
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.60
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.97
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.57
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.46
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.85
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.68
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.62
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.93
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.56
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.33
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.19
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.88
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.82
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.75
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.20
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.95
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.77
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.56
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.24
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.49
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.96
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.72
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.74
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.33
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.22
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.22
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.15
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.80
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.87
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.62
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.11
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.45
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.19
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.68
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.55
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.58
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.60
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.70
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.92
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.01
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.84
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.56
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.44
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.82
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.95
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.16
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.79
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.38
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.75
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.48
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.35
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.97
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.49
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.04
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.95
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.67
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.46
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.43
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.34
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.28
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.