Gene detail

Detailed information of OS493_031263-T1 in Lophelia pertusa

Genomic Location: scaffold_213:299011...303756
NR annotation: KAJ7376991.1, Retinoblastoma-associated protein [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)	OG0008552 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08934 all species →	Rb_C	Rb C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015030 all species →	Domain	Retinoblastoma-associated protein, C-terminal	Interproscan

PANTHER

No PANTHER signature was detected for OS493_031263-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

No Gene Ontology signature was detected for OS493_031263-T1. This gene does have a gene model — the search simply returned no hit.

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_031263-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_031263-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

87TPM > 0

7Conditions

16.1Max TPM

1.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	5	0.46	3.79
polyp at pH7 6	18	12	1.08	2.91
coral polyp · control treatment	16	16	2.89	10.77
coral polyp · oil and dispersant treatment	16	16	2.73	16.08
coral polyp · oil treatment	16	16	2.20	5.75
coral polyp · dispersant treatment	16	16	1.57	3.68
Polyp	10	6	0.88	2.26

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.45
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.05
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.04
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359499	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
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.91
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.56
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.36
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.83
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.75
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.74
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.48
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.23
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.21
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.05
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.79
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.54
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.77
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.30
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.48
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.43
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.52
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.47
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.31
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.62
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.49
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.23
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.97
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.95
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.80
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.75
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.08
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.22
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.64
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.08
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.84
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.63
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.49
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.46
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.43
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.36
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.25
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.07
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.76
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.67
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.52
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.26
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.75
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.92
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.85
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.80
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.12
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.02
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.67
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.40
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.29
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.28
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.90
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.86
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.79
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.60
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.56
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.68
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.98
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.40
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.02
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.91
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.48
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.46
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.46
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.40
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.27
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.19
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.18
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.64
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.56
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.50
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.26
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.14
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.36
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.18
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.11
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.79
SRR23025710	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.