Gene detail

Detailed information of OS493_000153-T1 in Lophelia pertusa

Genomic Location: scaffold_1:1739552...1744672
NR annotation: KAJ7394348.1, hypothetical protein OS493_000153 [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
P97355	Spermine synthase OS=Mus musculus OX=10090 GN=Sms PE=1 SV=1
Q3SZA5	Spermine synthase OS=Bos taurus OX=9913 GN=SMS PE=2 SV=1
P52788	Spermine synthase OS=Homo sapiens OX=9606 GN=SMS PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003794 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01564 all species →	Spermine_synth	Spermine/spermidine synthase domain	Domain	Interproscan
PF17284 all species →	Spermine_synt_N	Spermidine synthase tetramerisation domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015576 all species →	Family	Spermine synthase, animal	Interproscan
IPR030374 all species →	Domain	Polyamine biosynthesis domain	Interproscan
IPR030373 all species →	Conserved_site	Polyamine biosynthesis domain, conserved site	Interproscan
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan
IPR037163 all species →	Homologous_superfamily	Spermidine synthase, tetramerisation domain superfamily	Interproscan
IPR035246 all species →	Domain	Spermidine synthase, tetramerisation domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46315 all species →	SPERMINE SYNTHASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006597 all species →	Biological Process	spermine biosynthetic process	Interproscan
GO:0016768 all species →	Molecular Function	spermine synthase 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
K00562	INMT, TEMT; methyltransferase	EC:2.1.1.49 EC:2.1.1.96	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_000153-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

39.5Max TPM

18.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	16.53	28.74
polyp at pH7 6	18	17	18.25	27.79
coral polyp · control treatment	16	16	20.41	26.82
coral polyp · oil and dispersant treatment	16	16	15.44	27.74
coral polyp · oil treatment	16	16	22.87	37.83
coral polyp · dispersant treatment	16	16	14.76	25.66
Polyp	10	10	21.91	39.47

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.74
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.97
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.06
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.70
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.39
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.28
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.26
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.21
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.08
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.95
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.77
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.10
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.63
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.18
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.99
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.89
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.74
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.55
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.79
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.16
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.85
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.59
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.50
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.65
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.84
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.76
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.47
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.09
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.86
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.37
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.32
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.09
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.87
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.25
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.04
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.82
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.80
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.74
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.30
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.95
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.68
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.97
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.52
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.08
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.93
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.22
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.46
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.58
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.84
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.32
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.32
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.74
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.11
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.39
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.51
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.64
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.26
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.53
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.13
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.96
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.28
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.75
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.49
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.73
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.58
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.53
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.39
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.83
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.71
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.36
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.33
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.34
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.96
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.68
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.62
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.69
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.52
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.08
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.97
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.90
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.14
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.14
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.63
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.66
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.87
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.21
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.75
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.11
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.22
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.37
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.21
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.66
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.11
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.21
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.32
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.21
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.74
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.99
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.57
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	39.47
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	29.91
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	23.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	22.71
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	21.07
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.91
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	20.25
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	19.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	16.44
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.86

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.