Gene detail

Detailed information of OS493_029309-T1 in Lophelia pertusa

Genomic Location: scaffold_177:257959...268954
NR annotation: KAJ7377410.1, hypothetical protein OS493_029309 [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)	OG0004501 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12906 all species →	RINGv	RING-variant domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011016 all species →	Domain	Zinc finger, RING-CH-type	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR20893 all species →	LD08641P	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008270 all species →	Molecular Function	zinc 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_029309-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_029309-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

110TPM > 0

7Conditions

192.7Max TPM

57.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	29.00	39.79
polyp at pH7 6	18	18	31.22	42.10
coral polyp · control treatment	16	16	64.99	94.02
coral polyp · oil and dispersant treatment	16	16	95.15	149.59
coral polyp · oil treatment	16	16	66.57	100.55
coral polyp · dispersant treatment	16	16	88.24	192.71
Polyp	10	10	18.32	25.18

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.79
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.89
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.04
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.80
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.75
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.79
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.11
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.78
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.58
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.66
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.42
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.59
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.50
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.47
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.71
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.01
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.23
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.10
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.75
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.28
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.21
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.36
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.87
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.01
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.70
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.96
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.85
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.81
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.89
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.48
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.21
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.30
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.15
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.09
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.90
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	94.02
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	93.49
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	80.86
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	80.38
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.54
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.63
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.51
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.42
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.55
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.96
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.64
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.47
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.78
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.64
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.77
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.17
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	149.59
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	140.55
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	133.80
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	110.64
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	106.51
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	103.03
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	95.16
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	94.82
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.72
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.46
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	91.17
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.05
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	75.81
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.92
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.68
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.50
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	100.55
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	93.22
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	89.89
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.74
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.55
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	71.06
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	67.76
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	67.51
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.66
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.29
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.31
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.80
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.16
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.66
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.25
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	192.71
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	140.17
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	139.09
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	114.52
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	112.19
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	112.11
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	94.12
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	93.69
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	89.88
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.46
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.33
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.77
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.21
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.50
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.75
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.25
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	25.18
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	24.54
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	22.18
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	21.05
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	20.98
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	20.39
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	18.65
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	18.27
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.61
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.36

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.