Gene detail

Detailed information of OS493_016713-T1 in Lophelia pertusa

Genomic Location: scaffold_52:130711...132578
NR annotation: KAJ7372794.1, hypothetical protein OS493_016713 [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)	OG0000952 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03173 all species →	CHB_HEX	Putative carbohydrate binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004866 all species →	Domain	Chitobiase/beta-hexosaminidases, N-terminal domain	Interproscan
IPR008965 all species →	Homologous_superfamily	CBM2/CBM3, carbohydrate-binding domain superfamily	Interproscan
IPR012291 all species →	Homologous_superfamily	CBM2, carbohydrate-binding domain superfamily	Interproscan

PANTHER

No PANTHER signature was detected for OS493_016713-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

GO term	Category	Description	Source
GO:0030246 all species →	Molecular Function	carbohydrate binding	Interproscan
GO:0004553 all species →	Molecular Function	hydrolase activity, hydrolyzing O-glycosyl compounds	Interproscan
GO:0030247 all species →	Molecular Function	polysaccharide 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_016713-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_016713-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

106TPM > 0

7Conditions

24.0Max TPM

4.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.99	8.74
polyp at pH7 6	18	18	3.24	9.76
coral polyp · control treatment	16	16	3.77	8.91
coral polyp · oil and dispersant treatment	16	15	3.96	10.92
coral polyp · oil treatment	16	16	8.69	24.05
coral polyp · dispersant treatment	16	15	1.83	8.25
Polyp	10	8	1.64	4.64

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.74
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.87
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.54
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.41
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.31
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.98
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.16
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.01
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.83
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.22
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.44
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.31
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.23
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.11
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.64
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.55
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.43
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.02
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.76
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.99
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.49
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.35
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.96
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.06
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.66
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.65
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.61
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.50
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.97
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.90
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.46
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.36
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.30
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.06
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.03
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.91
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.01
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.94
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.30
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.20
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.02
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.94
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.63
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.19
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.79
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.70
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.61
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.31
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.28
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.85
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.92
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.08
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.89
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.84
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.32
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.23
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.86
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.21
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.15
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.14
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.87
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.46
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.12
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.65
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.55
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.05
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.65
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.65
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.43
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.05
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.03
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.87
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.65
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.21
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.76
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.41
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.70
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.65
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.82
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.23
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.75
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.47
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.41
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.55
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.53
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.49
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.47
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.42
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.66
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.58
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.35
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.24
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.64
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.71
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.16
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.57
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.03
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.53
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.50
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.23
SRR7746667	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.