Gene detail

Detailed information of OS493_016712-T1 in Lophelia pertusa

Genomic Location: scaffold_52:126982...129013
NR annotation: KAJ7372793.1, hypothetical protein OS493_016712 [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
Q54468	Chitobiase OS=Serratia marcescens OX=615 GN=chb PE=1 SV=1
P13670	N,N'-diacetylchitobiase OS=Vibrio harveyi OX=669 GN=chb PE=1 SV=1
P49007	Beta-hexosaminidase B OS=Pseudoalteromonas piscicida OX=43662 GN=nag096 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000952 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03174 all species →	CHB_HEX_C	Chitobiase/beta-hexosaminidase C-terminal domain	Domain	Interproscan
PF00728 all species →	Glyco_hydro_20	Glycosyl hydrolase family 20, catalytic domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004867 all species →	Domain	Chitobiase C-terminal domain	Interproscan
IPR025705 all species →	Family	Beta-hexosaminidase	Interproscan
IPR017853 all species →	Homologous_superfamily	Glycoside hydrolase superfamily	Interproscan
IPR015883 all species →	Domain	Glycoside hydrolase family 20, catalytic domain	Interproscan
IPR013783 all species →	Homologous_superfamily	Immunoglobulin-like fold	Interproscan
IPR014756 all species →	Homologous_superfamily	Immunoglobulin E-set	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22600 all species →	BETA-HEXOSAMINIDASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004563 all species →	Molecular Function	beta-N-acetylhexosaminidase activity	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0030203 all species →	Biological Process	glycosaminoglycan metabolic process	Interproscan
GO:0004553 all species →	Molecular Function	hydrolase activity, hydrolyzing O-glycosyl compounds	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_016712-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_016712-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

80TPM > 0

7Conditions

7.0Max TPM

1.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	8	0.76	3.87
polyp at pH7 6	18	8	0.65	4.58
coral polyp · control treatment	16	16	1.71	7.02
coral polyp · oil and dispersant treatment	16	13	0.95	2.44
coral polyp · oil treatment	16	16	1.48	4.02
coral polyp · dispersant treatment	16	13	1.17	4.97
Polyp	10	6	0.38	1.71

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.87
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.95
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.14
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.72
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.01
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.84
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.72
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.52
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359498	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
SRR11359509	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
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.58
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.30
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.25
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.16
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.92
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.39
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359504	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
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	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
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	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
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.02
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.56
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.12
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.60
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.44
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.34
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.34
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.34
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.32
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.05
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.72
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.62
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.55
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.49
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.45
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.44
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.31
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.74
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.51
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.50
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.26
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.17
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.10
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.90
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.45
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.39
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.29
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.08
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.02
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.03
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.36
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.87
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.65
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.57
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.52
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.39
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.28
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.89
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.26
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.26
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.25
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.15
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.97
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.65
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.75
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.48
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.12
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.09
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.01
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.88
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.79
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.59
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.52
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.50
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.41
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.71
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.02
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.37
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.29
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.25
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.19
SRR23025712	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.