Gene detail

Detailed information of OS493_011467-T1 in Lophelia pertusa

Genomic Location: scaffold_29:1525037...1527585
NR annotation: KAJ7363187.1, hypothetical protein OS493_011467 [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)	OG0000432 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04089 all species →	BRICHOS	BRICHOS domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR040145 all species →	Family	Integral membrane protein 2	Interproscan
IPR007084 all species →	Domain	BRICHOS domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10962 all species →	INTEGRAL TRANSMEMBRANE PROTEIN 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001540 all species →	Molecular Function	amyloid-beta binding	Interproscan
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0042985 all species →	Biological Process	negative regulation of amyloid precursor protein biosynthetic process	Interproscan
GO:0070062 all species →	Cellular Component	extracellular exosome	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_011467-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_011467-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

105TPM > 0

7Conditions

50.8Max TPM

9.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	11.42	32.00
polyp at pH7 6	18	15	13.94	50.77
coral polyp · control treatment	16	16	7.55	23.26
coral polyp · oil and dispersant treatment	16	16	8.70	28.80
coral polyp · oil treatment	16	16	12.67	47.50
coral polyp · dispersant treatment	16	16	7.01	21.09
Polyp	10	9	4.50	9.64

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.77
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.16
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.58
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.47
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.19
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.26
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.20
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.92
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.82
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.75
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.43
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.49
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.18
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.82
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.66
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.76
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.77
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.57
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.40
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.08
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.68
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.81
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.31
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.73
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.30
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.62
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.50
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.34
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.76
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.96
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.26
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.91
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.44
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.83
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.01
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.96
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.08
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.41
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.71
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.95
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.86
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.98
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.95
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.51
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.51
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.51
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.80
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.82
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.35
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.50
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.11
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.53
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.84
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.19
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.13
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.47
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.04
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.11
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.48
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.50
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.15
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.75
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.85
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.42
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.85
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.05
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.14
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.77
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.42
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.78
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.94
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.42
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.10
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.74
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.79
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.09
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.23
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.64
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.26
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.57
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.30
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.57
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.48
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.23
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.67
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.40
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.74
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.42
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.64
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.51
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.38
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	9.64
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.43
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.80
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.55
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.88
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.71
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.45
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.75
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.83
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.