Gene detail

Detailed information of OS493_034517-T1 in Lophelia pertusa

Genomic Location: scaffold_293:118406...120009
NR annotation: KAJ7351912.1, hypothetical protein OS493_034517 [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
F1MMV1	EF-hand domain-containing family member B OS=Bos taurus OX=9913 GN=EFHB PE=1 SV=3
Q8N7U6	EF-hand domain-containing family member B OS=Homo sapiens OX=9606 GN=EFHB PE=1 SV=4
Q8CDU5	EF-hand domain-containing family member B OS=Mus musculus OX=10090 GN=Efhb PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006694 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00036 all species →	EF-hand_1	EF hand	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR040193 all species →	Family	EF-hand domain-containing protein EFHC1/EFHC2/EFHB	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12086 all species →	EF-HAND DOMAIN C-TERMINAL CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion 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_034517-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_034517-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

97TPM > 0

7Conditions

32.9Max TPM

4.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	13	1.01	2.44
polyp at pH7 6	18	11	0.92	3.06
coral polyp · control treatment	16	16	7.27	32.86
coral polyp · oil and dispersant treatment	16	16	5.98	25.25
coral polyp · oil treatment	16	16	3.96	9.70
coral polyp · dispersant treatment	16	16	6.31	26.90
Polyp	10	9	3.59	6.25

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.44
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.32
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.05
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.83
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.78
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.56
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.31
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.11
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.92
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.85
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.70
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.65
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.63
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
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.06
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.32
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.77
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.69
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.41
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.41
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.25
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.16
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.98
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.87
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.60
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	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
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.86
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.19
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.36
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.09
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.02
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.03
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.12
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.34
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.29
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.72
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.87
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.79
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.39
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.17
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.12
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.25
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.97
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.67
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.93
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.23
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.72
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.70
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.73
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.57
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.16
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.12
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.12
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.68
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.36
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.70
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.92
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.74
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.55
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.53
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.44
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.64
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.29
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.13
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.99
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.74
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.60
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.60
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.05
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.91
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.46
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.90
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.44
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.36
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.59
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.39
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.70
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.93
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.54
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.87
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.76
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.28
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.93
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.92
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.32
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.97
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.25
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.62
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.10
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.95
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.92
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.59
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.09
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.75
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.62
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.