Gene detail

Detailed information of OS493_023516-T1 in Lophelia pertusa

Genomic Location: scaffold_104:1058391...1060184
NR annotation: KAJ7384187.1, hypothetical protein OS493_023516 [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
A8HYJ1	Translocase of chloroplast 34 homolog, chloroplastic OS=Chlamydomonas reinhardtii OX=3055 GN=TOC34 PE=1 SV=1
A9SY65	Translocase of chloroplast 108, chloroplastic OS=Physcomitrium patens OX=3218 GN=TOC108 PE=3 SV=1
Q9LUS2	Translocase of chloroplast 120, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=TOC120 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002055 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04548 all species →	AIG1	AIG1 family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR006703 all species →	Domain	AIG1-type guanine nucleotide-binding (G) domain	Interproscan
IPR045058 all species →	Family	GTPase GIMA/IAN/Toc	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10903 all species →	GTPASE, IMAP FAMILY MEMBER-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005525 all species →	Molecular Function	GTP binding	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_023516-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_023516-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

108TPM > 0

7Conditions

22.8Max TPM

4.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.70	7.40
polyp at pH7 6	18	18	5.31	7.67
coral polyp · control treatment	16	16	4.51	10.32
coral polyp · oil and dispersant treatment	16	15	3.43	6.51
coral polyp · oil treatment	16	16	3.96	7.70
coral polyp · dispersant treatment	16	15	3.55	7.39
Polyp	10	10	8.97	22.82

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.40
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.17
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.11
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.87
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.36
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.19
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.16
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.72
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.68
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.29
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.25
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.14
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.13
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.08
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.07
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.05
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.03
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.93
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.67
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.82
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.53
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.41
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.03
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.78
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.78
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.66
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.16
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.05
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.88
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.83
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.69
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.57
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.53
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.49
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.48
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.25
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.32
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.51
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.66
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.53
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.48
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.42
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.96
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.59
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.78
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.66
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.37
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.83
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.57
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.52
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.05
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.90
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.51
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.48
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.26
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.85
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.64
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.88
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.75
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.47
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.09
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.91
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.76
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.53
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.10
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.86
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.81
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.70
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.71
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.68
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.82
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.48
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.46
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.44
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.29
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.79
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.60
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.88
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.58
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.76
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.02
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.70
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.39
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.42
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.68
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.63
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.46
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.45
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.93
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.83
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.77
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.59
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.16
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.26
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.68
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.44
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.16
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	22.82
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	17.18
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	10.85
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.69
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.93
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.09
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.50
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.12
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.14
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.41

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.