Gene detail

Detailed information of OS493_035414-T1 in Lophelia pertusa

Genomic Location: scaffold_320:41100...48844
NR annotation: KAJ7382355.1, hypothetical protein OS493_035414 [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
P19623	Spermidine synthase OS=Homo sapiens OX=9606 GN=SRM PE=1 SV=1
Q64674	Spermidine synthase OS=Mus musculus OX=10090 GN=Srm PE=1 SV=1
Q9XY92	Spermidine synthase OS=Dictyostelium discoideum OX=44689 GN=spsA PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002572 (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
IPR030373 all species →	Conserved_site	Polyamine biosynthesis domain, conserved site	Interproscan
IPR037163 all species →	Homologous_superfamily	Spermidine synthase, tetramerisation domain superfamily	Interproscan
IPR001045 all species →	Family	Spermidine/spermine synthases	Interproscan
IPR035246 all species →	Domain	Spermidine synthase, tetramerisation domain	Interproscan
IPR030668 all species →	Family	Spermidine/spermine synthase, eukaryotes	Interproscan
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan
IPR030374 all species →	Domain	Polyamine biosynthesis domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11558 all species →	SPERMIDINE/SPERMINE SYNTHASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0006595 all species →	Biological Process	polyamine metabolic 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K00797	speE, SRM, SPE3; spermidine synthase	EC:2.5.1.16	Glutathione metabolism	ko00480	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_035414-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

104TPM > 0

7Conditions

12.6Max TPM

3.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	3.36	5.72
polyp at pH7 6	18	16	3.95	6.13
coral polyp · control treatment	16	16	5.05	7.86
coral polyp · oil and dispersant treatment	16	15	2.64	4.85
coral polyp · oil treatment	16	16	4.14	7.95
coral polyp · dispersant treatment	16	15	3.46	8.38
Polyp	10	9	4.89	12.59

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	-	5.72
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.53
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.07
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.03
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.30
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.11
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.04
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.24
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.13
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.12
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.93
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.79
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.74
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.55
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.53
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.93
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.68
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.13
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.84
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.72
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.34
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.29
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.17
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.99
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.36
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.19
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.14
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.07
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.95
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.38
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.23
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.95
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.39
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.86
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.78
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.52
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.04
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.64
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.24
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.84
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.65
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.19
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.13
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.87
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.48
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.54
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.14
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.82
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.85
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.48
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.40
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.27
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.97
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.94
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.67
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.60
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.29
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.28
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.23
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.19
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.10
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.95
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.96
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.75
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.15
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.06
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.98
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.71
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.55
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.42
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.67
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.83
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.77
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.43
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.38
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.59
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.84
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.68
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.28
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.18
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.28
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.25
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.18
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.96
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.87
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.74
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.96
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.31
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.87
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	12.59
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.56
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.83
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.12
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.01
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.52
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.47
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.66
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.11
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.