Gene detail

Detailed information of OS493_036419-T1 in Lophelia pertusa

Genomic Location: scaffold_364:61332...69900
NR annotation: KAJ7369776.1, hypothetical protein OS493_036419 [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
A0A314KSQ4	Jasmonoyl--L-amino acid synthetase JAR6 OS=Nicotiana attenuata OX=49451 GN=JAR6 PE=1 SV=2
A0A1J6KGJ9	Jasmonoyl--L-amino acid synthetase JAR4 OS=Nicotiana attenuata OX=49451 GN=JAR4 PE=1 SV=1
Q9SZT9	Indole-3-acetic acid-amido synthetase GH3.2 OS=Arabidopsis thaliana OX=3702 GN=GH3.2 PE=1 SV=3

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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K14487	GH3; auxin responsive GH3 gene family	-	Plant hormone signal transduction	ko04075	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_036419-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

100TPM > 0

7Conditions

5.3Max TPM

1.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	1.49	3.39
polyp at pH7 6	18	14	1.69	5.31
coral polyp · control treatment	16	15	1.15	2.38
coral polyp · oil and dispersant treatment	16	15	0.68	2.66
coral polyp · oil treatment	16	16	1.31	3.16
coral polyp · dispersant treatment	16	15	0.98	3.68
Polyp	10	9	1.07	2.54

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.39
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.33
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.31
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.96
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.89
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.30
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.85
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.27
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.08
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.90
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.77
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.69
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.69
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.55
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.48
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.42
SRR11359506	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
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.31
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.20
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.04
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.03
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.03
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.60
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.30
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.13
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.11
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.80
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.47
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.33
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.28
SRR11359512	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
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.38
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.18
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.10
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.04
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.72
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.20
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.18
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.86
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.86
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.83
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.67
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.65
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.61
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.59
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.53
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.66
SRR16705979	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	1.53
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.69
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.68
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.47
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.45
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.44
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.41
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.40
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.36
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.26
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.25
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.21
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.15
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.16
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.06
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.88
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.89
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.40
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.34
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.18
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.96
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.72
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.72
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.67
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.59
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.49
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.49
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.32
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.68
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.90
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.40
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.26
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.89
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.75
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.68
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.54
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.47
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.42
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.39
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.38
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.10
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.05
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.54
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.03
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.85
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.83
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.75
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.53
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.45
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.44
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.29
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.