Gene detail

Detailed information of OS493_019822-T1 in Lophelia pertusa

Genomic Location: scaffold_70:1347515...1348499
NR annotation: KAJ7372373.1, hypothetical protein OS493_019822 [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)	OG0009453 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_019822-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR033374 all species →	Family	NMDA receptor synaptonuclear signalling and neuronal migration factor	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR32061 all species →	NMDA RECEPTOR SYNAPTONUCLEAR SIGNALING AND NEURONAL MIGRATION FACTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0048168 all species →	Biological Process	regulation of neuronal synaptic plasticity	Interproscan
GO:2001222 all species →	Biological Process	regulation of neuron migration	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_019822-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_019822-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

120.0Max TPM

33.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	25.00	37.70
polyp at pH7 6	18	18	26.26	33.75
coral polyp · control treatment	16	16	27.33	78.90
coral polyp · oil and dispersant treatment	16	16	38.05	70.69
coral polyp · oil treatment	16	16	27.84	47.19
coral polyp · dispersant treatment	16	16	68.75	119.96
Polyp	10	10	18.78	51.19

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.70
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.68
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.21
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.32
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.38
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.57
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.50
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.34
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.85
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.18
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.54
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.73
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.35
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.12
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.82
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.54
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.52
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.75
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.25
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.36
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.31
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.29
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.90
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.52
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.04
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.98
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.52
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.74
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.63
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.17
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.93
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.03
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.33
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.83
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.18
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.90
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.50
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.33
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.63
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.78
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.28
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.87
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.70
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.79
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.45
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.28
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.07
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.35
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.99
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.61
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.85
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.69
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.60
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.87
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.37
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.51
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.78
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.06
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.69
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.63
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.89
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.73
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.01
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.44
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.40
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.88
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.19
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.72
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.93
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.44
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.35
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.20
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.17
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.10
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.85
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.28
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.17
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.05
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.02
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.13
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.68
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	119.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	103.25
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	97.13
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	96.84
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	87.01
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	70.47
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.53
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.99
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.67
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.16
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.71
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.28
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.50
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.58
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.73
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.21
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	51.19
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	41.77
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.18
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.20
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	14.86
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.64
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.20
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	7.87
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.53
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.35

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.