Gene detail

Detailed information of OS493_001941-T1 in Lophelia pertusa

Genomic Location: scaffold_4:3124745...3125458
NR annotation: KAJ7375198.1, hypothetical protein OS493_001941 [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
Q13231	Chitotriosidase-1 OS=Homo sapiens OX=9606 GN=CHIT1 PE=1 SV=1
Q95M17	Acidic mammalian chitinase OS=Bos taurus OX=9913 GN=CHIA PE=1 SV=1
Q9D7Q1	Chitotriosidase-1 OS=Mus musculus OX=10090 GN=Chit1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000804 (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
IPR011583 all species →	Domain	Chitinase II	Interproscan
IPR029070 all species →	Homologous_superfamily	Chitinase insertion domain superfamily	Interproscan
IPR050314 all species →	Family	Glycosyl Hydrolase Family 18	Interproscan
IPR001579 all species →	Active_site	Glycosyl hydrolases family 18 (GH18) active site	Interproscan
IPR001223 all species →	Domain	Glycoside hydrolase family 18, catalytic domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11177 all species →	CHITINASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008061 all species →	Molecular Function	chitin binding	Interproscan
GO:0004568 all species →	Molecular Function	chitinase activity	Interproscan
GO:0005576 all species →	Cellular Component	extracellular region	Interproscan
GO:0006032 all species →	Biological Process	chitin catabolic process	Interproscan
GO:0004553 all species →	Molecular Function	hydrolase activity, hydrolyzing O-glycosyl compounds	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate 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_001941-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_001941-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

108TPM > 0

7Conditions

53.5Max TPM

5.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.12	5.20
polyp at pH7 6	18	16	2.71	8.78
coral polyp · control treatment	16	16	7.25	18.40
coral polyp · oil and dispersant treatment	16	16	8.39	28.14
coral polyp · oil treatment	16	16	8.83	53.46
coral polyp · dispersant treatment	16	16	6.95	19.71
Polyp	10	10	5.28	18.99

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	-	5.20
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.89
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.24
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.53
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.65
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.08
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.94
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.75
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.72
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.57
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.48
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.15
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.95
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.81
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.73
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.37
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.78
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.93
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.85
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.21
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.12
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.77
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.56
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.45
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.13
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.46
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.44
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.41
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.36
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.25
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.25
SRR11359513	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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.40
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.13
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.23
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.13
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.50
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.27
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.02
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.67
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.12
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.56
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.39
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.25
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.14
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.38
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.28
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.14
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.88
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.21
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.29
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.04
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.07
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.43
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.01
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.91
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.60
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.51
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.23
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.34
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.10
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.93
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.55
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.46
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.56
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.48
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.14
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.21
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.69
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.75
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.53
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.89
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.22
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.65
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.13
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.89
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.25
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.45
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.71
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.15
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.93
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.55
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.24
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.18
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.61
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.17
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.08
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.89
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.83
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.71
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.46
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.54
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.18
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.98
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	18.99
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.14
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.14
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.90
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.62
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.35
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.21
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.41

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.