Gene detail

Detailed information of OS493_031348-T1 in Lophelia pertusa

Genomic Location: scaffold_214:537205...544501
NR annotation: KAJ7370612.1, Synaptotagmin-9 [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)	OG0009917 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13418 all species →	Kelch_4	Galactose oxidase, central domain	Repeat	Interproscan
PF01344 all species →	Kelch_1	Kelch motif	Repeat	Interproscan
PF00168 all species →	C2	C2 domain	Domain	Interproscan
PF13964 all species →	Kelch_6	Kelch motif	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015915 all species →	Homologous_superfamily	Kelch-type beta propeller	Interproscan
IPR035892 all species →	Homologous_superfamily	C2 domain superfamily	Interproscan
IPR000008 all species →	Domain	C2 domain	Interproscan
IPR006652 all species →	Repeat	Kelch repeat type 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24412 all species →	KELCH PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein 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_031348-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_031348-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

7.6Max TPM

3.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.96	6.40
polyp at pH7 6	18	18	3.62	7.57
coral polyp · control treatment	16	16	3.18	4.87
coral polyp · oil and dispersant treatment	16	15	1.80	2.71
coral polyp · oil treatment	16	16	2.99	5.97
coral polyp · dispersant treatment	16	16	2.66	5.69
Polyp	10	9	3.44	6.56

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	-	6.40
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.97
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.55
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.46
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.09
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.05
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.95
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.76
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.66
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.58
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.45
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.40
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.25
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.15
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.92
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.89
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.66
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.57
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.34
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.95
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.30
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.95
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.94
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.92
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.89
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.86
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.38
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.75
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.70
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.61
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.54
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.46
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.41
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.46
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.87
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.50
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.37
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.20
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.17
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.90
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.25
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.16
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.10
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.94
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.88
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.30
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.21
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.96
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.65
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.46
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.71
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.67
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.62
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.36
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.26
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.15
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.14
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.09
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.98
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.66
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.59
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.50
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.34
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.97
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.02
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.86
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.47
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.47
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.29
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.26
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.17
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.90
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.90
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.57
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.72
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.67
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.61
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.02
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.69
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.55
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.52
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.18
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.07
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.51
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.21
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.21
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.19
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.16
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.07
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.22
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.57
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.56
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.54
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.95
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.08
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.01
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.41
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.37
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.22
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.21
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.