Gene detail

Detailed information of OS493_034324-T1 in Lophelia pertusa

Genomic Location: scaffold_287:195294...205873
NR annotation: KAJ7352719.1, G patch domain-containing protein 2 [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)

UniProt accession	Description
F4JCU0	SUPPRESSOR OF ABI3-5 OS=Arabidopsis thaliana OX=3702 GN=SUA PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007299 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01585 all species →	G-patch	G-patch domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051189 all species →	Family	Splicing-associated domain-containing protein	Interproscan
IPR000467 all species →	Domain	G-patch domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14195 all species →	G PATCH DOMAIN CONTAINING PROTEIN 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid 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_034324-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_034324-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

104TPM > 0

7Conditions

20.5Max TPM

6.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	7.13	11.87
polyp at pH7 6	18	17	7.66	20.53
coral polyp · control treatment	16	15	5.10	13.95
coral polyp · oil and dispersant treatment	16	15	6.44	17.09
coral polyp · oil treatment	16	15	5.95	18.57
coral polyp · dispersant treatment	16	16	4.60	8.15
Polyp	10	9	6.81	14.93

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	-	11.87
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.73
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.53
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.63
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.47
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.34
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.07
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.93
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.77
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.34
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.18
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.73
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.69
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.17
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.44
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.45
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.53
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.10
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.30
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.16
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.48
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.43
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.25
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.08
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.77
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.75
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.48
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.31
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.89
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.64
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.38
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.05
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.95
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.37
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.23
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.11
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.91
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.77
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.71
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.49
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.10
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.92
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.66
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.51
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.44
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.34
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.04
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.09
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.44
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.69
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.85
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.95
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.65
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.61
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.90
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.70
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.27
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.24
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.89
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.60
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.13
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.57
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.52
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.28
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.48
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.25
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.05
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.94
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.20
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.79
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.20
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.17
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.09
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.75
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.51
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.38
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.15
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.75
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.60
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.56
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.77
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.72
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.40
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.19
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.93
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.90
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.41
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.38
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.02
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.38
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.21
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	14.93
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	11.05
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.40
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	8.49
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.29
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.22
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.98
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.75
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.