Gene detail

Detailed information of OS493_015057-T1 in Lophelia pertusa

Genomic Location: scaffold_44:124481...127101
NR annotation: KAJ7385487.1, S-adenosylmethionine synthase isoform type-1 [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
P31153	S-adenosylmethionine synthase isoform type-2 OS=Homo sapiens OX=9606 GN=MAT2A PE=1 SV=1
Q4R924	S-adenosylmethionine synthase isoform type-2 OS=Macaca fascicularis OX=9541 GN=MAT2A PE=2 SV=1
Q3THS6	S-adenosylmethionine synthase isoform type-2 OS=Mus musculus OX=10090 GN=Mat2a PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001670 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02773 all species →	S-AdoMet_synt_C	S-adenosylmethionine synthetase, C-terminal domain	Domain	Interproscan
PF02772 all species →	S-AdoMet_synt_M	S-adenosylmethionine synthetase, central domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR022631 all species →	Conserved_site	S-adenosylmethionine synthetase, conserved site	Interproscan
IPR002133 all species →	Family	S-adenosylmethionine synthetase	Interproscan
IPR022630 all species →	Domain	S-adenosylmethionine synthetase, C-terminal	Interproscan
IPR022636 all species →	Homologous_superfamily	S-adenosylmethionine synthetase superfamily	Interproscan
IPR022629 all species →	Domain	S-adenosylmethionine synthetase, central domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11964 all species →	S-ADENOSYLMETHIONINE SYNTHETASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004478 all species →	Molecular Function	methionine adenosyltransferase activity	Interproscan
GO:0006556 all species →	Biological Process	S-adenosylmethionine biosynthetic process	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	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
K00789	metK, MAT; S-adenosylmethionine synthetase	EC:2.5.1.6	Biosynthesis of various plant secondary metabolites	ko00999	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_015057-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

1,927.7Max TPM

815.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	786.18	1,263.15
polyp at pH7 6	18	18	1,058.61	1,927.70
coral polyp · control treatment	16	16	732.35	1,375.35
coral polyp · oil and dispersant treatment	16	16	1,018.29	1,627.40
coral polyp · oil treatment	16	16	757.82	1,273.70
coral polyp · dispersant treatment	16	16	789.95	1,665.00
Polyp	10	10	369.81	690.77

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,263.15
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,250.45
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,117.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,116.82
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	954.04
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	937.19
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	894.85
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	882.35
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	660.38
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	658.58
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	606.87
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	602.01
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	577.50
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	575.48
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	575.40
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	539.15
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	473.55
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	466.35
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,927.70
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,919.16
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,538.71
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,516.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,329.96
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,323.91
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,308.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,294.03
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,037.42
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,027.51
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	748.06
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	740.10
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	699.89
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	673.52
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	566.33
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	549.55
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	437.28
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	417.55
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,375.35
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,335.42
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,163.90
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	940.87
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	812.69
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	789.22
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	770.39
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	668.94
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	664.74
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	659.48
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	493.02
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	492.59
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	461.35
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	458.93
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	318.90
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	311.76
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,627.40
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,486.05
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,218.46
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,168.53
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,151.48
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,087.08
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,043.91
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,041.91
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,016.98
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	922.84
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	874.03
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	824.83
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	819.55
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	800.31
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	761.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	448.32
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,273.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,063.35
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1,039.79
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	986.56
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	907.93
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	905.74
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	834.32
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	779.45
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	701.45
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	673.80
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	573.04
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	572.18
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	533.28
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	490.37
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	399.48
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	390.76
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,665.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,387.00
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	981.53
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	939.64
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	900.97
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	892.32
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	852.94
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	761.92
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	743.89
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	686.77
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	540.83
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	504.33
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	491.18
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	470.75
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	430.93
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	389.16
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	690.77
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	686.97
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	372.72
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	357.33
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	309.07
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	300.31
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	290.15
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	244.02
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	231.14
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	215.58

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.