Gene detail

Detailed information of OS493_011312-T1 in Lophelia pertusa

Genomic Location: scaffold_28:2801963...2806334
NR annotation: KAJ7373703.1, hypothetical protein OS493_011312 [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
Q6NU29	Methylthioribulose-1-phosphate dehydratase OS=Xenopus laevis OX=8355 GN=apip PE=2 SV=1
C1C4M8	Methylthioribulose-1-phosphate dehydratase OS=Aquarana catesbeiana OX=8400 GN=apip PE=2 SV=1
C1BJB1	Methylthioribulose-1-phosphate dehydratase OS=Osmerus mordax OX=8014 GN=apip PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004496 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00596 all species →	Aldolase_II	Class II Aldolase and Adducin N-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036409 all species →	Homologous_superfamily	Class II aldolase/adducin N-terminal domain superfamily	Interproscan
IPR001303 all species →	Domain	Class II aldolase/adducin N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10640 all species →	METHYLTHIORIBULOSE-1-PHOSPHATE DEHYDRATASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0019509 all species →	Biological Process	L-methionine salvage from methylthioadenosine	Interproscan
GO:0046570 all species →	Molecular Function	methylthioribulose 1-phosphate dehydratase 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
K08964	mtnB; methylthioribulose-1-phosphate dehydratase	EC:4.2.1.109	Cysteine and methionine metabolism	ko00270	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_011312-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

109TPM > 0

7Conditions

12.6Max TPM

6.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.53	11.59
polyp at pH7 6	18	18	7.22	12.64
coral polyp · control treatment	16	16	6.96	10.34
coral polyp · oil and dispersant treatment	16	16	4.89	8.14
coral polyp · oil treatment	16	16	8.14	10.97
coral polyp · dispersant treatment	16	16	5.86	9.92
Polyp	10	9	6.48	12.10

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.59
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.47
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.28
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.84
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.91
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.47
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.72
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.52
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.49
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.97
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.67
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.56
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.41
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.07
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.95
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.75
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.16
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.64
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.12
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.65
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.31
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.80
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.76
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.66
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.46
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.34
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.22
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.10
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.73
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.64
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.53
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.93
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.01
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.67
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.34
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.50
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.32
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.47
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.46
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.33
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.41
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.78
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.43
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.82
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.72
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.91
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.37
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.66
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.14
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.77
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.65
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.47
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.32
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.20
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.49
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.47
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.19
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.12
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.09
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.39
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.93
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.67
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.97
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.49
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.28
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.01
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.17
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.24
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.15
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.13
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.10
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.86
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.64
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.44
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.31
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.91
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.57
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.92
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.42
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.75
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.56
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.35
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.31
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.17
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.53
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.46
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.88
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.50
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.45
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.83
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.56
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.16
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.10
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.97
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.70
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.45
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.99
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.36
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.29
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.13
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.83
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.