Gene detail

Detailed information of OS493_015543-T1 in Lophelia pertusa

Genomic Location: scaffold_47:375069...376394
NR annotation: KAJ7360442.1, hypothetical protein OS493_015543 [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
Q8BLI4	Dermatan-sulfate epimerase OS=Mus musculus OX=10090 GN=Dse PE=2 SV=1
P0C2H4	Dermatan-sulfate epimerase OS=Bos taurus OX=9913 GN=DSE PE=1 SV=1
Q9UL01	Dermatan-sulfate epimerase OS=Homo sapiens OX=9606 GN=DSE PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002542 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16332 all species →	DUF4962	Domain of unknown function (DUF4962)	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR052447 all species →	Family	Dermatan-Sulfate Isomerase	Interproscan
IPR032518 all species →	Domain	Heparinase II, N-terminal	Interproscan
IPR008929 all species →	Homologous_superfamily	Chondroitin AC/alginate lyase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15532 all species →	-	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0030204 all species →	Biological Process	chondroitin sulfate metabolic process	Interproscan
GO:0030205 all species →	Biological Process	dermatan sulfate metabolic process	Interproscan
GO:0047757 all species →	Molecular Function	chondroitin-glucuronate 5-epimerase 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

No KEGG orthology assignment for OS493_015543-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_015543-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

65TPM > 0

7Conditions

7.1Max TPM

0.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	11	0.16	0.69
polyp at pH7 6	18	11	0.11	0.49
coral polyp · control treatment	16	10	0.46	3.41
coral polyp · oil and dispersant treatment	16	8	1.02	5.46
coral polyp · oil treatment	16	10	0.23	1.25
coral polyp · dispersant treatment	16	13	0.83	7.08
Polyp	10	2	0.01	0.09

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.69
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.44
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.35
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.33
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.27
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.23
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.20
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.13
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.12
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.07
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.07
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.49
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.31
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.30
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.17
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.15
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.15
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.14
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.12
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.10
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.07
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.01
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	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
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.41
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.78
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.70
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.59
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.54
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.42
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.28
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.27
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.18
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.18
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.46
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.56
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.43
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.97
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.30
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.27
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.23
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.02
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.25
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.05
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.40
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.28
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.19
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.18
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.12
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.09
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.07
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.04
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.08
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.48
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.52
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.35
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.16
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.14
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.14
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.14
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.05
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.04
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.02
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.09
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.04
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025713	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.