Gene detail

Detailed information of OS493_020309-T1 in Lophelia pertusa

Genomic Location: scaffold_74:1152468...1153643
NR annotation: KAJ7384723.1, hypothetical protein OS493_020309 [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)

UniProt accession	Description
Q5R868	GPI-N-acetylgalactosamine transferase PGAP4 OS=Pongo abelii OX=9601 GN=PGAP4 PE=2 SV=1
Q9BRR3	GPI-N-acetylgalactosamine transferase PGAP4 OS=Homo sapiens OX=9606 GN=PGAP4 PE=1 SV=1
Q91YV9	GPI-N-acetylgalactosamine transferase PGAP4 OS=Mus musculus OX=10090 GN=Pgap4 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004356 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_020309-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR029675 all species →	Family	GPI-GalNAc transferase PGAP4	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31410 all species →	TRANSMEMBRANE PROTEIN 246	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000139 all species →	Cellular Component	Golgi membrane	Interproscan
GO:0006506 all species →	Biological Process	GPI anchor biosynthetic process	Interproscan
GO:0016757 all species →	Molecular Function	glycosyltransferase activity	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_020309-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_020309-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

9.7Max TPM

3.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.29	6.53
polyp at pH7 6	18	18	4.56	9.73
coral polyp · control treatment	16	16	4.02	8.46
coral polyp · oil and dispersant treatment	16	16	2.55	8.59
coral polyp · oil treatment	16	16	3.57	7.30
coral polyp · dispersant treatment	16	16	1.39	3.15
Polyp	10	10	4.83	9.23

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.53
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.15
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.41
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.83
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.65
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.64
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.55
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.31
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.29
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.27
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.91
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.90
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.87
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.62
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.25
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.21
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.13
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.67
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.73
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.79
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.39
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.82
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.19
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.02
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.47
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.39
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.30
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.19
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.15
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.03
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.67
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.60
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.14
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.89
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.48
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.84
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.46
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.32
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.91
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.86
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.71
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.40
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.24
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.52
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.17
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.14
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.12
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.81
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.74
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.64
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.61
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.68
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.59
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.22
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.38
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.02
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.96
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.54
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.31
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.04
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.84
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.53
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.48
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.40
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.20
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.13
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.93
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.30
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.40
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.23
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.02
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.65
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.91
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.58
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.45
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.25
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.08
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.87
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.75
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.01
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.86
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.67
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.12
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.15
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.92
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.38
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.16
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.30
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.27
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.08
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.07
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.02
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.85
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.47
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.44
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.43
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.33
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.23
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.22
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.09
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.56
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.87
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.80
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.22
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.96
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.31

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.