Gene detail

Detailed information of OS493_034323-T1 in Lophelia pertusa

Genomic Location: scaffold_287:168948...174445
NR annotation: KAJ7352718.1, 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
Q6PE65	G patch domain-containing protein 2-like OS=Mus musculus OX=10090 GN=Gpatch2l PE=1 SV=1

Gene family

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

Pfam domain

No Pfam domain signature was detected for OS493_034323-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR036867 all species →	Homologous_superfamily	R3H domain superfamily	Interproscan
IPR051189 all species →	Family	Splicing-associated domain-containing protein	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	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_034323-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_034323-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

37.0Max TPM

13.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.43	13.20
polyp at pH7 6	18	18	11.99	16.75
coral polyp · control treatment	16	16	16.10	29.88
coral polyp · oil and dispersant treatment	16	16	16.79	37.03
coral polyp · oil treatment	16	16	13.43	21.35
coral polyp · dispersant treatment	16	16	11.79	19.14
Polyp	10	10	12.27	17.03

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	-	13.20
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.62
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.53
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.77
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.64
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.55
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.49
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.25
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.52
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.35
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.19
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.82
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.39
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.98
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.49
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.29
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.68
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.75
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.77
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.81
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.16
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.53
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.06
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.40
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.34
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.04
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.98
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.93
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.74
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.13
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.05
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.87
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.56
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.87
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.79
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.88
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.36
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.85
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.63
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.71
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.62
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.15
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.95
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.54
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.29
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.77
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.58
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.94
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.67
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.17
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.53
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.03
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.85
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.31
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.18
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.95
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.78
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.15
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.04
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.68
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.44
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.21
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.40
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.39
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.28
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.32
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.60
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.35
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.83
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.20
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.64
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.20
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.04
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.09
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.91
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.58
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.33
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.71
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.66
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.81
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.95
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.40
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.14
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.86
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.12
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.57
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.08
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.08
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.47
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.13
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.92
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.80
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.07
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.58
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.92
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.03
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.11
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.75
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.38
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	12.47
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	11.77
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.02
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.32
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.09
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.77

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.