Gene detail

Detailed information of OS493_030316-T1 in Lophelia pertusa

Genomic Location: scaffold_194:315706...316503
NR annotation: KAJ7383164.1, O-glycan processing, core 1 [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
Q9JJ05	Glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase 1 OS=Rattus norvegicus OX=10116 GN=C1galt1 PE=1 SV=1
Q0VC84	Glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase 1 OS=Bos taurus OX=9913 GN=C1GALT1 PE=2 SV=1
Q9JJ06	Glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase 1 OS=Mus musculus OX=10090 GN=C1galt1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002064 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02434 all species →	Fringe	Fringe-like	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR026050 all species →	Family	C1GALT1/C1GALT1-specific chaperone 1	Interproscan
IPR003378 all species →	Domain	Fringe-like, glycosyltransferase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23033 all species →	BETA1,3-GALACTOSYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016263 all species →	Molecular Function	glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase activity	Interproscan
GO:0016267 all species →	Biological Process	core 1 O-glycan biosynthetic process	Interproscan
GO:0016020 all species →	Cellular Component	membrane	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_030316-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_030316-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

106TPM > 0

7Conditions

5.2Max TPM

0.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	1.09	2.30
polyp at pH7 6	18	18	1.30	4.03
coral polyp · control treatment	16	16	1.05	2.29
coral polyp · oil and dispersant treatment	16	16	0.99	5.24
coral polyp · oil treatment	16	15	0.76	2.22
coral polyp · dispersant treatment	16	14	0.59	1.75
Polyp	10	9	0.51	0.91

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.30
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.82
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.50
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.16
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.14
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.05
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.99
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.92
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.87
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.86
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.71
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.49
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.49
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.39
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.03
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.19
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.14
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.03
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.86
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.74
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.70
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.53
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.32
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.09
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.92
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.91
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.68
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.45
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.35
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.28
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.13
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.11
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.29
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.08
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.67
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.47
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.41
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.40
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.04
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.03
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.83
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.74
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.54
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.48
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.36
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.32
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.14
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.24
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.27
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.27
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.21
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.12
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.07
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.78
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.63
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.54
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.53
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.49
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.43
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.42
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.39
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.33
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.13
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.22
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.80
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.44
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.91
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.85
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.85
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.79
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.77
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.58
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.45
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.42
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.29
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.07
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.05
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.75
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.03
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.84
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.83
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.82
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.74
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.73
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.67
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.58
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.42
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.31
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.31
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.27
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.91
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.84
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.70
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.59
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.57
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.55
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.49
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.29
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.20
SRR7746667	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.