Gene detail

Detailed information of OS493_039630-T1 in Lophelia pertusa

Genomic Location: scaffold_1311:9564...11232
NR annotation: KAJ7375681.1, hypothetical protein OS493_039630, partial [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
Q71UH5	Calmodulin OS=Globisporangium splendens OX=82926 PE=2 SV=1
P27165	Calmodulin OS=Phytophthora infestans OX=4787 GN=CMD1 PE=3 SV=2
Q40302	Calmodulin OS=Macrocystis pyrifera OX=35122 PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000122 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13499 all species →	EF-hand_7	EF-hand domain pair	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR051111 all species →	Family	Calcium-binding regulatory protein	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46311 all species →	CALCIUM-BINDING PROTEIN 8-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0032588 all species →	Cellular Component	trans-Golgi network membrane	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
K02183	CALM; calmodulin	-	Exosome	ko04147	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_039630-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

70TPM > 0

7Conditions

5.5Max TPM

1.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	2.36	5.18
polyp at pH7 6	18	15	2.06	5.51
coral polyp · control treatment	16	10	0.45	1.62
coral polyp · oil and dispersant treatment	16	9	0.47	1.69
coral polyp · oil treatment	16	8	0.33	1.36
coral polyp · dispersant treatment	16	6	0.21	1.37
Polyp	10	6	0.81	3.15

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.18
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.68
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.59
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.21
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.04
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.93
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.82
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.45
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.30
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.78
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.76
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.62
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.57
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.36
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.15
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.51
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.86
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.71
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.28
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.25
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.99
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.96
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.14
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.04
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.98
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.92
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.06
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.92
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.85
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.55
SRR11359504	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	1.62
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.51
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.12
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.03
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.40
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.36
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.35
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.31
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.26
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.20
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.69
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.55
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.94
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.75
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.71
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.57
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.32
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.28
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706005	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	1.36
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.23
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.01
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.58
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.42
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.31
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.29
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.14
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.37
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.64
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.43
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.40
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.31
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.19
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.15
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.94
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.92
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.56
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.27
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.25
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.00
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.