Gene detail

Detailed information of OS493_011037-T1 in Lophelia pertusa

Genomic Location: scaffold_27:3361960...3398044
NR annotation: KAJ7380315.1, hypothetical protein OS493_011037 [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
Q01460	Di-N-acetylchitobiase OS=Rattus norvegicus OX=10116 GN=Ctbs PE=1 SV=1
Q8R242	Di-N-acetylchitobiase OS=Mus musculus OX=10090 GN=Ctbs PE=1 SV=2
Q01459	Di-N-acetylchitobiase OS=Homo sapiens OX=9606 GN=CTBS PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006504 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00704 all species →	Glyco_hydro_18	Glycosyl hydrolases family 18	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017853 all species →	Homologous_superfamily	Glycoside hydrolase superfamily	Interproscan
IPR001223 all species →	Domain	Glycoside hydrolase family 18, catalytic domain	Interproscan
IPR011583 all species →	Domain	Chitinase II	Interproscan
IPR029070 all species →	Homologous_superfamily	Chitinase insertion domain superfamily	Interproscan
IPR051887 all species →	Family	Glycosyl Hydrolase 18 Domain-Containing Protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46290 all species →	DI-N-ACETYLCHITOBIASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0008061 all species →	Molecular Function	chitin binding	Interproscan
GO:0005615 all species →	Cellular Component	extracellular space	Interproscan
GO:0009313 all species →	Biological Process	oligosaccharide catabolic 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K12310	CTBS; Di-N-acetylchitobiase	EC:3.2.1.-	Enzymes with EC numbers	-	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_011037-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

20.2Max TPM

5.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	6.04	10.59
polyp at pH7 6	18	15	5.31	9.64
coral polyp · control treatment	16	16	7.39	20.24
coral polyp · oil and dispersant treatment	16	16	4.97	10.83
coral polyp · oil treatment	16	16	5.92	11.23
coral polyp · dispersant treatment	16	15	5.38	9.44
Polyp	10	9	3.36	5.77

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.59
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.89
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.24
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.67
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.43
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.30
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.60
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.31
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.44
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.43
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.02
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.01
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.82
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.48
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.38
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.78
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.68
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.61
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.64
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.70
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.12
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.06
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.93
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.64
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.61
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.30
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.18
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.71
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.49
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.98
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.95
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.85
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.41
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.24
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.58
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.71
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.62
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.37
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.32
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.63
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.19
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.29
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.05
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.56
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.72
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.71
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.48
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.79
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.83
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.61
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.51
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.32
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.20
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.17
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.76
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.61
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.21
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.06
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.66
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.39
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.28
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.12
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.65
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.15
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.23
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.98
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.95
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.93
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.94
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.57
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.00
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.85
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.26
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.68
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.57
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.49
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.25
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.76
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.12
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.44
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.89
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.75
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.77
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.66
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.92
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.13
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.83
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.53
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.56
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.43
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.25
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.27
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.32
SRR16705985	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
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.77
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.43
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.51
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.36
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.86
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.19
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.84
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.79
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.84
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.