Gene detail

Detailed information of OS493_003055-T1 in Lophelia pertusa

Genomic Location: scaffold_6:4447123...4448235
NR annotation: KAJ7340319.1, hypothetical protein OS493_003055 [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)	OG0001786 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02661 all species →	Fic	Fic/DOC family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR040198 all species →	Family	Fido domain-containing protein	Interproscan
IPR003812 all species →	Domain	Fido domain	Interproscan
IPR036597 all species →	Homologous_superfamily	Fido-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13504 all species →	FIDO DOMAIN-CONTAINING PROTEIN DDB_G0283145	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_003055-T1. This gene does have a gene model — the search simply returned no hit.

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_003055-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_003055-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

98TPM > 0

7Conditions

34.7Max TPM

8.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.11	10.83
polyp at pH7 6	18	17	5.61	8.48
coral polyp · control treatment	16	13	8.03	26.79
coral polyp · oil and dispersant treatment	16	14	13.68	30.04
coral polyp · oil treatment	16	13	6.33	15.66
coral polyp · dispersant treatment	16	13	11.28	34.67
Polyp	10	10	6.38	17.11

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.83
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.77
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.18
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.32
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.09
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.65
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.62
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.05
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.66
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.93
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.81
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.51
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.37
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.84
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.79
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.78
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.36
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.54
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.43
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.25
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.16
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.80
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.45
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.42
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.33
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.90
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.71
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.70
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.85
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.61
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.27
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.18
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.96
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.79
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.27
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.34
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.74
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.31
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.15
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.96
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.35
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.35
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.59
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.29
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.27
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.09
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.04
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.20
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.82
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.86
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.43
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.18
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.94
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.67
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.47
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.27
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.79
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.44
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.71
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.07
SRR16705997	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
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.66
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.66
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.57
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.02
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.78
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.78
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.60
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.41
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.24
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.14
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.51
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.91
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.06
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705984	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
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.67
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.04
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.83
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.24
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.78
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.09
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.48
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.58
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.48
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.65
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.06
SRR16705956	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
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	17.11
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.52
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.88
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.93
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.19
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.17
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.04
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.60
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.57
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.81

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.