Gene detail

Detailed information of OS493_023894-T1 in Lophelia pertusa

Genomic Location: scaffold_108:387865...393165
NR annotation: KAJ7328625.1, hypothetical protein OS493_023894 [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_023894-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_023894-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

84TPM > 0

7Conditions

57.5Max TPM

5.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	11	7.58	35.96
polyp at pH7 6	18	15	4.37	12.58
coral polyp · control treatment	16	13	8.56	57.50
coral polyp · oil and dispersant treatment	16	12	5.37	23.21
coral polyp · oil treatment	16	15	7.15	53.96
coral polyp · dispersant treatment	16	11	3.07	35.16
Polyp	10	7	3.62	18.42

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	-	35.96
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.91
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.37
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.22
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.99
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.94
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.77
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.74
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.24
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.31
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.07
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.58
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.29
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.35
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.03
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.94
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.54
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.51
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.83
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.78
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.74
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.66
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.64
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.37
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.72
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.68
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.50
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.07
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.53
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.27
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.20
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.21
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.74
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.05
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.95
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.43
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.86
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.58
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.52
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.21
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.47
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.05
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.85
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.75
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.62
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.32
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.97
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.87
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.65
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.47
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.96
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.47
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.57
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.89
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.54
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.37
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.04
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.14
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.98
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.69
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.44
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.17
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.14
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.16
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.47
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.11
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.29
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.26
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.80
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.38
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.36
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.35
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	18.42
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.71
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.49
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.22
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.25
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.78
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.38
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.00
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.