Gene detail

Detailed information of OS493_009391-T1 in Lophelia pertusa

Genomic Location: scaffold_22:2431571...2434423
NR annotation: KAJ7374060.1, BEN domain-containing protein 3 [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)	OG0000665 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10523 all species →	BEN	BEN domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR033583 all species →	Family	BEN domain-containing protein 3	Interproscan
IPR018379 all species →	Domain	BEN domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR28665 all species →	BEN DOMAIN-CONTAINING PROTEIN 3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000183 all species →	Biological Process	rDNA heterochromatin formation	Interproscan
GO:0000792 all species →	Cellular Component	heterochromatin	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	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_009391-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_009391-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

110TPM > 0

7Conditions

57.2Max TPM

20.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	16.17	25.97
polyp at pH7 6	18	18	15.00	20.87
coral polyp · control treatment	16	16	26.30	42.85
coral polyp · oil and dispersant treatment	16	16	29.06	57.24
coral polyp · oil treatment	16	16	23.27	33.45
coral polyp · dispersant treatment	16	16	18.86	32.62
Polyp	10	10	10.44	17.16

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.97
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.67
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.54
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.26
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.13
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.89
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.57
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.11
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.95
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.77
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.62
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.90
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.50
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.43
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.83
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.87
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.68
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.79
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.98
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.48
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.47
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.70
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.40
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.71
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.68
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.17
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.84
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.60
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.38
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.97
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.62
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.67
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.85
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.41
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.62
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.30
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.67
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.81
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.13
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.89
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.70
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.02
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.62
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.33
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.43
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.09
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.38
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.24
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.08
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.34
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.10
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.14
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.23
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.88
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.61
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.37
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.93
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.87
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.36
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.06
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.56
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.26
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.97
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.45
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.80
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.95
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.58
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.38
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.37
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.29
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.03
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.75
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.19
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.72
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.32
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.19
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.83
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.38
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.62
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.05
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.29
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.17
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.33
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.83
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.72
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.33
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.43
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.06
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.88
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.50
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.45
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.59
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.89
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	17.16
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	13.49
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	13.08
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.96
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	11.38
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.51
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.09
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	7.07
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	6.69
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.00

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.