Gene detail

Detailed information of OS493_027424-T1 in Lophelia pertusa

Genomic Location: scaffold_149:567321...578532
NR annotation: KAJ7356027.1, hypothetical protein OS493_027424 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008078 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02784 all species →	Orn_Arg_deC_N	Pyridoxal-dependent decarboxylase, pyridoxal binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000183 all species →	Family	Ornithine/DAP/Arg decarboxylase	Interproscan
IPR002433 all species →	Family	Ornithine decarboxylase	Interproscan
IPR009006 all species →	Homologous_superfamily	Alanine racemase/group IV decarboxylase, C-terminal	Interproscan
IPR029066 all species →	Homologous_superfamily	PLP-binding barrel	Interproscan
IPR022644 all species →	Domain	Orn/DAP/Arg decarboxylase 2, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43727 all species →	DIAMINOPIMELATE DECARBOXYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0006596 all species →	Biological Process	polyamine biosynthetic process	Interproscan
GO:0008836 all species →	Molecular Function	diaminopimelate decarboxylase activity	Interproscan
GO:0009089 all species →	Biological Process	lysine biosynthetic process via diaminopimelate	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_027424-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_027424-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

106TPM > 0

7Conditions

12.3Max TPM

4.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.53	7.82
polyp at pH7 6	18	16	4.48	9.60
coral polyp · control treatment	16	16	5.30	9.25
coral polyp · oil and dispersant treatment	16	16	2.73	5.58
coral polyp · oil treatment	16	16	6.37	10.80
coral polyp · dispersant treatment	16	16	3.06	10.96
Polyp	10	8	5.29	12.25

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.82
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.10
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.01
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.99
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.95
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.88
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.20
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.78
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.57
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.34
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.80
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.44
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.38
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.15
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.11
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.41
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.60
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.36
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.97
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.91
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.61
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.60
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.42
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.39
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.99
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.94
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.11
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.73
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.70
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.54
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.19
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.69
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.25
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.08
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.59
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.32
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.79
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.24
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.13
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.93
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.89
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.97
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.54
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.52
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.69
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.62
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.15
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.58
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.37
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.89
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.67
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.66
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.28
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.27
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.87
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.51
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.13
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.86
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.67
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.50
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.23
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.68
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.54
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.80
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.38
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.89
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.27
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.96
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.29
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.43
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.21
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.19
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.15
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.63
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.19
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.50
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.24
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.20
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.96
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.09
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.09
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.07
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.47
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.07
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.73
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.32
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.91
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.13
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.90
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.86
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.58
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.56
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.36
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	12.25
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.53
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.22
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.31
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.70
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.93
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.30
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.68
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.