Gene detail

Detailed information of OS493_016203-T1 in Lophelia pertusa

Genomic Location: scaffold_49:1730409...1733773
NR annotation: KAJ7391907.1, hypothetical protein OS493_016203 [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)	OG0006723 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_016203-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR043384 all species →	Family	Reticulophagy receptor 1/3	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR28659 all species →	RETICULOPHAGY REGULATOR 3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0061709 all species →	Biological Process	reticulophagy	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K23880	RETREG; reticulophagy regulator	-	Membrane trafficking	ko04131	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_016203-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

51.7Max TPM

26.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	24.62	35.71
polyp at pH7 6	18	18	21.46	28.80
coral polyp · control treatment	16	16	28.32	38.74
coral polyp · oil and dispersant treatment	16	16	33.97	51.16
coral polyp · oil treatment	16	16	26.66	37.86
coral polyp · dispersant treatment	16	16	30.84	51.70
Polyp	10	10	19.40	32.41

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.71
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.06
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.86
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.72
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.52
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.02
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.98
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.55
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.27
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.89
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.60
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.74
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.32
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.48
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.13
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.31
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.33
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.62
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.80
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.41
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.24
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.16
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.32
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.68
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.29
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.60
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.15
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.56
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.38
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.71
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.38
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.36
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.57
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.34
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.74
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.50
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.01
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.44
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.38
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.58
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.10
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.70
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.53
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.40
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.29
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.12
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.56
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.87
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.52
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.31
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.16
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.45
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.92
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.95
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.61
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.09
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.24
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.23
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.74
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.23
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.17
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.61
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.33
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.30
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.94
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.52
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.86
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.53
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.52
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.04
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.03
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.25
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.95
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.24
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.41
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.84
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.68
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.05
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.69
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.70
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.38
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.33
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.24
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.52
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.20
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.86
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.57
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.08
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.67
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.39
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.47
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.81
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.06
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.92
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.15
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	32.41
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	31.72
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	30.04
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	24.99
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	24.02
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	20.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.34
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9.10
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.71
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.24

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.