Gene detail

Detailed information of OS493_009972-T1 in Lophelia pertusa

Genomic Location: scaffold_24:1283629...1289297
NR annotation: KAJ7337120.1, hypothetical protein OS493_009972 [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
P41044	Calbindin-32 OS=Drosophila melanogaster OX=7227 GN=Cbp53E PE=2 SV=1
Q5XJX1	Secretagogin OS=Danio rerio OX=7955 GN=scgn PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010830 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_009972-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR051001 all species →	Family	Calbindin Calcium-Binding	Interproscan
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19972 all species →	CALBINDIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0043005 all species →	Cellular Component	neuron projection	Interproscan
GO:0045202 all species →	Cellular Component	synapse	Interproscan
GO:0051480 all species →	Biological Process	regulation of cytosolic calcium ion concentration	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_009972-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_009972-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

109TPM > 0

7Conditions

60.7Max TPM

21.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	25.75	49.86
polyp at pH7 6	18	18	26.91	60.71
coral polyp · control treatment	16	16	24.24	50.91
coral polyp · oil and dispersant treatment	16	16	18.05	35.30
coral polyp · oil treatment	16	16	21.40	45.63
coral polyp · dispersant treatment	16	16	15.75	33.45
Polyp	10	9	18.21	43.82

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.86
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.91
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.45
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.37
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.18
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.18
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.31
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.96
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.49
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.84
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.42
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.83
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.67
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.34
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.78
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.49
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.19
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.26
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.71
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.30
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.25
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.34
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.58
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.95
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.28
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.20
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.06
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.92
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.15
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.18
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.55
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.48
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.84
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.41
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.10
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.12
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.91
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.85
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.84
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.30
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.30
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.36
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.11
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.93
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.40
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.18
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.39
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.34
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.04
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.34
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.79
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.30
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.65
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.52
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.62
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.04
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.01
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.85
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.13
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.96
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.62
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.99
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.62
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.48
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.31
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.18
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.47
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.63
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.21
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.58
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.68
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.33
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.72
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.68
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.13
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.82
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.73
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.47
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.28
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.29
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.46
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.93
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.50
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.45
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.47
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.63
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.23
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.12
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.61
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.59
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.42
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.23
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.56
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.94
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.64
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.22
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.11
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.32
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.38
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	43.82
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	37.33
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	24.37
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	21.85
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	20.04
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.61
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.83
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.66
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.63
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.