Gene detail

Detailed information of OS493_015056-T1 in Lophelia pertusa

Genomic Location: scaffold_44:120890...123851
NR annotation: KAJ7385486.1, 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
P40320	S-adenosylmethionine synthase OS=Drosophila melanogaster OX=7227 GN=Sams PE=2 SV=2
Q2KJC6	S-adenosylmethionine synthase isoform type-1 OS=Bos taurus OX=9913 GN=MAT1A PE=2 SV=1
P31153	S-adenosylmethionine synthase isoform type-2 OS=Homo sapiens OX=9606 GN=MAT2A PE=1 SV=1

Gene family

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

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00438 all species →	S-AdoMet_synt_N	S-adenosylmethionine synthetase, N-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002133 all species →	Family	S-adenosylmethionine synthetase	Interproscan
IPR022628 all species →	Domain	S-adenosylmethionine synthetase, N-terminal	Interproscan
IPR022636 all species →	Homologous_superfamily	S-adenosylmethionine synthetase superfamily	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:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006556 all species →	Biological Process	S-adenosylmethionine biosynthetic process	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_015056-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_015056-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

1,611.5Max TPM

654.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	612.82	1,035.92
polyp at pH7 6	18	18	889.27	1,611.48
coral polyp · control treatment	16	16	560.99	1,108.30
coral polyp · oil and dispersant treatment	16	16	801.06	1,148.83
coral polyp · oil treatment	16	16	597.02	984.97
coral polyp · dispersant treatment	16	16	695.49	1,459.90
Polyp	10	10	244.79	596.52

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	-	1,035.92
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1,035.15
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	948.91
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	940.68
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	765.90
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	759.20
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	675.60
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	658.54
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	521.03
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	507.65
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	449.27
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	429.29
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	428.40
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	425.53
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	420.72
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	414.24
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	325.25
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	289.46
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,611.48
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,600.14
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,284.94
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,250.41
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,229.51
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,211.82
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,089.16
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,072.46
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1,002.48
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	974.28
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	578.12
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	565.20
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	486.40
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	463.90
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	428.15
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	426.08
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	424.55
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	307.70
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,108.30
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1,091.32
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	871.75
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	702.31
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	633.55
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	591.47
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	585.85
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	546.18
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	412.75
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	399.02
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	392.79
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	384.82
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	367.90
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	359.29
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	267.38
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	261.12
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,148.83
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,146.43
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,029.17
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1,002.74
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	898.33
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	881.50
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	828.59
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	798.80
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	771.60
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	729.57
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	718.86
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	715.40
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	710.13
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	593.15
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	505.56
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	338.26
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	984.97
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	957.97
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	930.07
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	821.23
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	756.89
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	747.99
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	661.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	632.10
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	493.95
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	489.73
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	484.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	466.32
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	431.84
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	287.66
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	269.96
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	136.58
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,459.90
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1,284.80
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	924.28
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	899.03
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	862.97
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	842.37
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	768.86
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	679.80
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	653.40
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	642.52
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	496.15
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	467.97
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	443.84
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	353.01
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	182.04
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	166.82
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	596.52
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	510.99
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	276.90
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	230.63
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	215.93
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	151.43
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	150.69
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	133.10
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	126.51
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	55.26

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.