Gene detail

Detailed information of OS493_002751-T1 in Lophelia pertusa

Genomic Location: scaffold_5:7488402...7491367
NR annotation: KAJ7366009.1, hypothetical protein OS493_002751 [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

InterPro

InterPro term	Type	Description	Source
IPR015576 all species →	Family	Spermine synthase, animal	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
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

No KEGG orthology assignment for OS493_002751-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_002751-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

95TPM > 0

7Conditions

20.7Max TPM

4.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	4.72	9.81
polyp at pH7 6	18	9	1.83	6.74
coral polyp · control treatment	16	16	6.90	20.67
coral polyp · oil and dispersant treatment	16	14	2.31	5.21
coral polyp · oil treatment	16	15	4.18	9.37
coral polyp · dispersant treatment	16	16	3.12	6.71
Polyp	10	9	6.75	16.46

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.81
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.49
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.90
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.06
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.75
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.56
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.82
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.56
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.58
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.22
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.16
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.58
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.06
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.47
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.81
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.74
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.43
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.23
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.20
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.41
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.20
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.65
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.28
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.83
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.67
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.74
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.94
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.88
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.18
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.43
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.11
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.35
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.97
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.47
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.30
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.30
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.58
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.84
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.21
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.33
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.25
SRR16705994	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	3.30
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.19
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.16
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.46
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.08
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.89
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.38
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.37
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.66
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.22
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.13
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.59
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.33
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.21
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.01
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.99
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.64
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.89
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.65
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.53
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.36
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.29
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.71
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.70
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.07
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.71
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.23
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.86
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.75
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.54
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.98
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.13
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.03
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.99
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.25
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.00
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.69
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	16.46
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	11.87
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.30
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.34
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.44
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.23
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.28
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.57
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.