Gene detail

Detailed information of OS493_003490-T1 in Lophelia pertusa

Genomic Location: scaffold_7:2213193...2218417
NR annotation: KAJ7393824.1, hypothetical protein OS493_003490 [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
G5EBQ8	Chitin synthase chs-2 OS=Caenorhabditis elegans OX=6239 GN=chs-2 PE=1 SV=1
G5ECD6	Chitin synthase chs-1 OS=Caenorhabditis elegans OX=6239 GN=chs-1 PE=1 SV=1
Q8T5G8	Chitin synthase OS=Meloidogyne artiellia OX=42426 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001011 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_003490-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR004835 all species →	Family	Chitin synthase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22914 all species →	CHITIN SYNTHASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004100 all species →	Molecular Function	chitin synthase activity	Interproscan
GO:0006038 all species →	Biological Process	obsolete cell wall chitin biosynthetic process	Interproscan
GO:0016758 all species →	Molecular Function	hexosyltransferase activity	Interproscan
GO:0030428 all species →	Cellular Component	cell septum	Interproscan
GO:0071944 all species →	Cellular Component	cell periphery	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_003490-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_003490-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

104TPM > 0

7Conditions

30.1Max TPM

9.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.93	12.01
polyp at pH7 6	18	17	9.06	14.94
coral polyp · control treatment	16	16	14.25	30.12
coral polyp · oil and dispersant treatment	16	16	9.58	18.49
coral polyp · oil treatment	16	15	8.92	21.98
coral polyp · dispersant treatment	16	15	14.29	27.58
Polyp	10	7	1.74	3.93

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.01
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.02
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.82
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.68
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.83
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.21
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.98
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.08
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.08
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.99
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.80
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.31
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.08
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.01
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.70
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.90
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.61
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.94
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.14
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.67
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.60
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.65
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.62
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.61
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.54
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.16
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.48
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.37
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.92
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.21
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.33
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.09
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.41
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.34
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.12
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.04
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.37
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.05
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.09
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.04
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.58
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.68
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.25
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.53
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.47
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.30
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.64
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.09
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.56
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.20
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.49
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.59
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.36
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.11
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.58
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.50
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.79
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.64
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.59
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.51
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.06
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.91
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.47
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.42
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.31
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.94
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.98
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.65
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.54
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.06
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.66
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.42
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.20
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.57
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.52
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.98
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.33
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.98
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.91
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.94
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.58
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.79
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.39
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.33
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.06
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.59
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.89
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.18
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.22
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.72
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.93
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.24
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.20
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.25
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.23
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.93
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.93
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.02
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.46
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.01
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.18
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.83
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
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.