Gene detail

Detailed information of OS493_028746-T1 in Lophelia pertusa

Genomic Location: scaffold_168:479517...481976
NR annotation: KAJ7326023.1, hypothetical protein OS493_028746 [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)	OG0010040 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF11035 all species →	SNAPC2	Small nuclear RNA activating complex (SNAPc), subunit 2	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR021281 all species →	Family	Small nuclear RNA activating complex subunit 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15132 all species →	SNRNA-ACTIVATING PROTEIN COMPLEX SUBUNIT 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0009301 all species →	Biological Process	snRNA transcription	Interproscan
GO:0016251 all species →	Molecular Function	RNA polymerase II general transcription initiation factor activity	Interproscan
GO:0016604 all species →	Cellular Component	nuclear body	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_028746-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_028746-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

82.4Max TPM

38.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	31.64	51.12
polyp at pH7 6	18	18	35.14	49.80
coral polyp · control treatment	16	16	40.87	73.01
coral polyp · oil and dispersant treatment	16	16	51.78	82.43
coral polyp · oil treatment	16	16	44.02	65.93
coral polyp · dispersant treatment	16	16	22.93	47.71
Polyp	10	10	45.00	72.42

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	-	51.12
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.48
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.42
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.83
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.74
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.63
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.83
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.97
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.71
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.17
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.96
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.40
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.54
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.74
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.88
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.38
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.38
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.27
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.80
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.98
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.52
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.16
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.75
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.26
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.40
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.71
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.47
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.07
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.92
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.89
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.76
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.72
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.69
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.92
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.40
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.01
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.38
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.49
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.72
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.63
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.85
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.57
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.85
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.37
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.53
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.45
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.76
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.21
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.08
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.15
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.83
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	82.43
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.96
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	68.81
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	68.55
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.10
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.80
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.82
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.59
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.57
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.79
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.25
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.85
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.01
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.97
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.93
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.68
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.24
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.37
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.13
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.39
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.70
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.61
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.89
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.34
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.83
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.83
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.48
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.26
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.71
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.79
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.74
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.98
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.66
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.15
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.66
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.28
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.36
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.06
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.33
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.91
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.70
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.34
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.10
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.06
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	72.42
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	64.67
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	58.89
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	52.24
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	49.42
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	35.51
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	32.38
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	31.31
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	31.13
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	22.00

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.