Gene detail

Detailed information of OS493_036420-T1 in Lophelia pertusa

Genomic Location: scaffold_364:76602...91634
NR annotation: KAJ7369777.1, hypothetical protein OS493_036420 [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
Q6I581	Jasmonoyl--L-amino acid synthetase GH3.5 OS=Oryza sativa subsp. japonica OX=39947 GN=GH3.5 PE=1 SV=1
A0A1J6KGJ9	Jasmonoyl--L-amino acid synthetase JAR4 OS=Nicotiana attenuata OX=49451 GN=JAR4 PE=1 SV=1
A0A314KSQ4	Jasmonoyl--L-amino acid synthetase JAR6 OS=Nicotiana attenuata OX=49451 GN=JAR6 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004748 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03321 all species →	GH3	GH3 auxin-responsive promoter	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004993 all species →	Family	GH3 family	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31901 all species →	GH3 DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0016881 all species →	Molecular Function	acid-amino acid ligase 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_036420-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_036420-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

107TPM > 0

7Conditions

7.4Max TPM

2.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.94	6.12
polyp at pH7 6	18	16	3.61	7.08
coral polyp · control treatment	16	16	2.69	7.44
coral polyp · oil and dispersant treatment	16	15	1.11	2.61
coral polyp · oil treatment	16	16	2.68	5.42
coral polyp · dispersant treatment	16	16	1.46	4.35
Polyp	10	10	2.73	3.91

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.12
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.52
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.46
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.25
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.98
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.75
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.55
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.08
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.82
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.81
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.69
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.43
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.07
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.04
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.24
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.44
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.30
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.08
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.37
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.10
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.83
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.45
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.94
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.41
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.48
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.35
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.21
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.91
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.82
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.67
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.84
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.59
SRR11359501	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	7.44
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.31
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.30
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.16
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.12
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.02
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.92
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.96
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.85
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.80
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.76
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.09
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.08
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.86
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.30
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.61
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.94
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.91
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.35
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.12
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.08
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.93
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.83
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.65
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.59
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.38
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.13
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.42
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.05
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.65
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.03
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.44
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.13
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.78
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.62
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.51
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.95
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.76
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.65
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.21
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.13
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.78
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.72
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.35
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.53
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.07
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.91
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.79
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.41
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.26
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.21
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.02
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.02
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.68
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.65
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.64
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.34
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.25
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.91
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.76
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.22
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.99
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.87
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.69
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.27
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.05
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.85
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.68

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.