Gene detail

Detailed information of OS493_001647-T1 in Lophelia pertusa

Genomic Location: scaffold_3:7448060...7466235
NR annotation: KAJ7381499.1, hypothetical protein OS493_001647 [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)	OG0003947 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01847 all species →	VHL	VHL beta domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036208 all species →	Homologous_superfamily	VHL superfamily	Interproscan
IPR037140 all species →	Homologous_superfamily	von Hippel-Lindau disease tumour suppressor, beta domain superfamily	Interproscan
IPR024053 all species →	Domain	von Hippel-Lindau disease tumour suppressor, beta domain	Interproscan

PANTHER

No PANTHER signature was detected for OS493_001647-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

No Gene Ontology signature was detected for OS493_001647-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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K08030	NKX6-1; homeobox protein Nkx-6.1	-	Transcription factors	ko03000	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_001647-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

155.6Max TPM

79.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	100.75	112.55
polyp at pH7 6	18	18	95.91	114.97
coral polyp · control treatment	16	16	78.85	136.28
coral polyp · oil and dispersant treatment	16	16	57.43	110.86
coral polyp · oil treatment	16	16	83.74	155.65
coral polyp · dispersant treatment	16	16	49.90	103.95
Polyp	10	10	92.38	136.18

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	112.55
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	112.32
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	111.62
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	109.53
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	107.94
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	107.51
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	107.41
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	105.69
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	103.39
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	102.45
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	102.07
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	98.84
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	97.74
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	97.29
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	88.17
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	83.50
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	83.31
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	82.27
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	114.97
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	114.64
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	112.44
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	111.38
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	110.11
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	104.72
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	101.05
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	97.25
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	96.48
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	92.62
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	91.58
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.89
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.61
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	89.23
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.29
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	79.93
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	73.60
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	73.48
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	136.28
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	117.83
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	107.94
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	100.90
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.79
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.34
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	82.23
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.74
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.76
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.02
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.87
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.77
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.71
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.75
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.85
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.80
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	110.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.79
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.94
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.26
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.21
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.93
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.77
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.09
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.23
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.62
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.64
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.81
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.67
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.32
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.19
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.49
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	155.65
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	127.22
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	117.42
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	107.13
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	94.95
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	94.90
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	87.89
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.42
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.99
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.64
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.70
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.33
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.97
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.64
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.41
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.66
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	103.95
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	84.27
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	75.06
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.87
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.59
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.56
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.58
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.93
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.72
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.77
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.23
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.22
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.34
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.35
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.46
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.55
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	136.18
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	119.97
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	106.25
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	105.07
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	93.73
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	92.78
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	89.58
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	64.76
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	61.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	54.08

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.