Gene detail

Detailed information of OS493_009957-T1 in Lophelia pertusa

Genomic Location: scaffold_24:1079213...1081198
NR annotation: KAJ7337105.1, hypothetical protein OS493_009957 [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)	OG0008347 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_009957-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR036236 all species →	Homologous_superfamily	Zinc finger C2H2 superfamily	Interproscan
IPR013087 all species →	Domain	Zinc finger C2H2-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46664 all species →	ATM INTERACTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000976 all species →	Molecular Function	transcription cis-regulatory region 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

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_009957-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_009957-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

14.5Max TPM

1.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	2.10	4.24
polyp at pH7 6	18	14	2.08	4.31
coral polyp · control treatment	16	16	2.83	14.50
coral polyp · oil and dispersant treatment	16	15	1.36	2.96
coral polyp · oil treatment	16	15	2.00	3.72
coral polyp · dispersant treatment	16	14	1.29	3.02
Polyp	10	9	1.86	3.25

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.24
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.38
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.17
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.92
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.55
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.53
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.32
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.15
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.71
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.57
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.49
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.21
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.99
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.97
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.86
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.31
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.74
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.38
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.37
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.22
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.16
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.90
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.68
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.62
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.07
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.05
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.35
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.31
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.27
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	14.50
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.91
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.88
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.93
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.85
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.81
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.64
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.81
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.80
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.78
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.32
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.26
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.85
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.79
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.72
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.96
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.75
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.49
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.34
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.66
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.51
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.39
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.33
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.21
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.98
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.86
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.85
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.69
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.64
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.15
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.72
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.48
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.45
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.31
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.27
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.26
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.17
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.03
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.03
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.92
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.71
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.64
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.42
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.77
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.02
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.51
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.43
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.20
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.94
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.74
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.36
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.28
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.17
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.87
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.62
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.23
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
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
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.25
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.80
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.27
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.24
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.14
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.08
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.24
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.60
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.