Gene detail

Detailed information of OS493_009222-T1 in Lophelia pertusa

Genomic Location: scaffold_22:1014895...1020259
NR annotation: KAJ7373898.1, hypothetical protein OS493_009222 [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
Q9FKK7	Xylose isomerase OS=Arabidopsis thaliana OX=3702 GN=XYLA PE=2 SV=2
Q40082	Xylose isomerase OS=Hordeum vulgare OX=4513 GN=XYLA PE=1 SV=1
P0CI80	Xylose isomerase OS=Bacillus subtilis (strain 168) OX=224308 GN=xylA PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010532 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_009222-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR001998 all species →	Family	Xylose isomerase	Interproscan
IPR036237 all species →	Homologous_superfamily	Xylose isomerase-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR48320 all species →	-	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0009045 all species →	Molecular Function	xylose isomerase activity	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
K01805	xylA; xylose isomerase	EC:5.3.1.5	Fructose and mannose metabolism	ko00051	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_009222-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

110TPM > 0

7Conditions

57.8Max TPM

32.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	29.32	43.62
polyp at pH7 6	18	18	31.16	44.51
coral polyp · control treatment	16	16	38.67	57.84
coral polyp · oil and dispersant treatment	16	16	29.28	48.86
coral polyp · oil treatment	16	16	38.12	54.88
coral polyp · dispersant treatment	16	16	26.86	47.04
Polyp	10	10	31.06	50.48

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.62
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.88
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.02
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.67
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.59
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.59
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.89
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.71
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.20
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.88
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.75
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.01
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.48
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.84
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.12
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.44
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.11
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.03
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.51
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	43.27
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.17
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.52
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.18
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.01
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.07
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.08
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.89
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.48
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.22
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.56
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.50
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.07
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.12
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.21
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.98
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.84
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.96
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.58
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.96
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.29
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.47
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.31
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.27
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.24
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.10
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.88
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.26
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.63
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.80
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.37
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.68
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.86
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.97
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.44
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.04
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.45
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.35
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.45
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.98
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.18
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.02
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.29
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.87
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.64
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.68
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.70
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.63
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.88
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.89
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.83
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.05
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.68
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.34
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.74
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.20
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.07
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.56
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.02
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.07
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.68
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.72
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.86
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.28
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.04
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.54
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.62
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.64
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.96
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.46
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.69
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.39
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.26
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.02
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.01
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.42
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.25
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.14
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.55
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.75
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	50.48
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	48.18
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	47.47
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	37.57
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	28.02
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	27.43
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	23.23
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	21.09
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	14.02
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	13.16

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.