Gene detail

Detailed information of OS493_018699-T1 in Lophelia pertusa

Genomic Location: scaffold_62:1235741...1242921
NR annotation: KAJ7385010.1, Saccharopine dehydrogenase [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
Q09694	Saccharopine dehydrogenase [NAD(+), L-lysine-forming] OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=lys3 PE=1 SV=2
Q870G1	Saccharopine dehydrogenase [NAD(+), L-lysine-forming] OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) OX=227321 GN=lysA PE=3 SV=2
P38997	Saccharopine dehydrogenase [NAD(+), L-lysine-forming] OS=Yarrowia lipolytica (strain CLIB 122 / E 150) OX=284591 GN=LYS5 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001821 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01262 all species →	AlaDh_PNT_C	Alanine dehydrogenase/PNT, C-terminal domain	Domain	Interproscan
PF05222 all species →	AlaDh_PNT_N	Alanine dehydrogenase/PNT, N-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR007698 all species →	Domain	Alanine dehydrogenase/pyridine nucleotide transhydrogenase, NAD(H)-binding domain	Interproscan
IPR007886 all species →	Domain	Alanine dehydrogenase/pyridine nucleotide transhydrogenase, N-terminal	Interproscan
IPR027281 all species →	Family	Saccharopine dehydrogenase [NAD(+), L-lysine-forming]	Interproscan
IPR051168 all species →	Family	Alpha-aminoadipic semialdehyde synthase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11133 all species →	SACCHAROPINE DEHYDROGENASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004754 all species →	Molecular Function	saccharopine dehydrogenase (NAD+, L-lysine-forming) activity	Interproscan
GO:0009085 all species →	Biological Process	lysine biosynthetic process	Interproscan
GO:0004753 all species →	Molecular Function	saccharopine dehydrogenase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0019878 all species →	Biological Process	lysine biosynthetic process via aminoadipic acid	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
K00290	LYS1; saccharopine dehydrogenase (NAD+, L-lysine forming)	EC:1.5.1.7	Lysine degradation	ko00310	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_018699-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

94.9Max TPM

24.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	13.09	25.02
polyp at pH7 6	18	18	14.87	25.52
coral polyp · control treatment	16	16	28.83	55.04
coral polyp · oil and dispersant treatment	16	16	38.24	63.73
coral polyp · oil treatment	16	16	25.32	39.98
coral polyp · dispersant treatment	16	16	41.01	94.86
Polyp	10	9	9.01	13.75

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.02
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.44
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.25
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.30
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.87
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.49
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.16
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.21
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.83
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.72
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.71
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.38
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.35
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.67
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.63
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.07
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.98
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.45
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.52
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.01
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.12
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.20
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.40
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.12
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.10
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.16
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.65
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.77
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.64
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.08
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.64
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.49
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.30
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.48
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.45
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.50
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.04
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.12
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.83
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.00
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.92
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.42
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.58
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.22
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.36
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.24
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.03
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.44
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.32
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.28
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.68
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.76
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.73
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.91
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.31
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.51
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.46
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.93
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.91
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.37
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.83
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.10
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.50
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.38
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.70
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.16
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.98
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.19
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.62
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.72
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.28
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.27
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.28
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.24
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.63
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.40
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.62
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.54
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.31
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.09
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.91
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	94.86
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	90.35
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	85.40
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.30
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.96
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.02
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.99
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.40
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.80
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.71
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.59
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.53
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.04
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.79
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.39
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.75
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.09
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.67
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.17
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.87
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.59
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.51
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.31
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.12
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.