Gene detail

Detailed information of OS493_018710-T1 in Lophelia pertusa

Genomic Location: scaffold_62:1369912...1372856
NR annotation: KAJ7385021.1, hypothetical protein OS493_018710 [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
A2VDS1	Selenocysteine lyase OS=Bos taurus OX=9913 GN=SCLY PE=2 SV=1
Q68FT9	Selenocysteine lyase OS=Rattus norvegicus OX=10116 GN=Scly PE=1 SV=1
Q5U4Q9	Selenocysteine lyase OS=Xenopus tropicalis OX=8364 GN=scly PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001536 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00266 all species →	Aminotran_5	Aminotransferase class-V	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015424 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase	Interproscan
IPR016454 all species →	Family	Cysteine desulfurase	Interproscan
IPR000192 all species →	Domain	Aminotransferase class V domain	Interproscan
IPR015422 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, small domain	Interproscan
IPR015421 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, major domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11601 all species →	CYSTEINE DESULFURYLASE FAMILY MEMBER	Interproscan

Gene Ontology

No Gene Ontology signature was recorded for OS493_018710-T1 in Lophelia pertusa.

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
K01763	SCLY; selenocysteine lyase	EC:4.4.1.16	Selenocompound metabolism	ko00450	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_018710-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

13.6Max TPM

3.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.99	8.19
polyp at pH7 6	18	18	4.39	11.31
coral polyp · control treatment	16	16	3.78	8.95
coral polyp · oil and dispersant treatment	16	16	2.76	13.61
coral polyp · oil treatment	16	16	3.21	5.16
coral polyp · dispersant treatment	16	16	2.09	3.53
Polyp	10	10	5.16	8.01

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	-	8.19
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.28
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.18
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.75
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.01
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.94
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.67
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.62
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.51
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.41
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.40
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.34
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.14
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.01
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.89
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.85
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.58
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.31
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.44
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.83
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.68
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.53
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.49
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.45
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.06
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.99
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.86
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.83
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.81
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.33
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.02
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.73
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.62
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.11
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.95
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.25
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.98
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.89
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.81
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.81
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.42
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.33
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.28
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.24
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.16
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.08
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.68
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.18
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.74
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.68
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.61
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.31
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.31
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.12
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.74
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.51
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.93
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.77
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.63
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.62
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.61
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.52
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.49
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.39
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.16
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.75
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.55
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.41
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.60
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.41
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.40
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.17
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.14
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.82
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.65
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.37
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.25
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.01
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.85
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.81
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.53
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.10
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.71
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.56
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.52
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.39
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.38
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.35
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.28
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.07
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.68
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.40
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.21
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.92
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.23
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.01
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.26
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.26
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.14
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.18
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.12
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.76
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.46
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.60
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.84

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.