Gene detail

Detailed information of OS493_016707-T1 in Lophelia pertusa

Genomic Location: scaffold_52:74305...75651
NR annotation: KAJ7372788.1, hypothetical protein OS493_016707 [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
Q04786	Beta-hexosaminidase OS=Vibrio vulnificus OX=672 GN=hex 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
PF00728 all species →	Glyco_hydro_20	Glycosyl hydrolase family 20, catalytic domain	Domain	Interproscan
PF03174 all species →	CHB_HEX_C	Chitobiase/beta-hexosaminidase C-terminal domain	Domain	Interproscan

InterPro

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

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0004553 all species →	Molecular Function	hydrolase activity, hydrolyzing O-glycosyl compounds	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0004563 all species →	Molecular Function	beta-N-acetylhexosaminidase activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0030203 all species →	Biological Process	glycosaminoglycan metabolic process	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_016707-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_016707-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

105TPM > 0

7Conditions

24.0Max TPM

7.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	4.99	11.17
polyp at pH7 6	18	16	4.96	9.86
coral polyp · control treatment	16	16	11.03	24.02
coral polyp · oil and dispersant treatment	16	16	6.85	17.15
coral polyp · oil treatment	16	16	8.95	18.69
coral polyp · dispersant treatment	16	16	7.93	22.18
Polyp	10	9	7.19	15.27

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.17
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.11
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.02
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.01
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.28
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.71
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.61
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.51
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.14
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.47
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.36
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.98
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.91
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.83
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.33
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
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.86
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.80
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.60
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.59
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.60
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.38
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.32
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.04
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.65
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.39
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.85
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.78
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.69
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.49
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.18
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.99
SRR11359501	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
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.02
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.32
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.79
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.11
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.28
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.90
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.62
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.51
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.21
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.44
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.68
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.60
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.60
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.11
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.92
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.15
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.96
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.20
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.93
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.80
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.58
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.15
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.09
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.97
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.42
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.99
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.97
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.58
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.54
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.25
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.69
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.77
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.11
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.56
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.25
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.58
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.39
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.96
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.29
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.90
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.59
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.36
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.85
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.65
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.75
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.44
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.18
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.23
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.61
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.02
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.82
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.62
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.52
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.39
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.66
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.54
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.98
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.87
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.29
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.02
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.15
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.03
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.27
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.77
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	13.82
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.93
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.52
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.58
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.71
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.30
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.03
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.