Gene detail

Detailed information of OS493_030439-T1 in Lophelia pertusa

Genomic Location: scaffold_196:88527...96749
NR annotation: KAJ7370687.1, hypothetical protein OS493_030439 [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
Q8JHF2	Beta-1,3-N-acetylglucosaminyltransferase lunatic fringe OS=Danio rerio OX=7955 GN=lfng PE=2 SV=2
O12972	Beta-1,3-N-acetylglucosaminyltransferase radical fringe OS=Gallus gallus OX=9031 GN=RFNG PE=2 SV=2
Q6KFX9	Beta-1,3-N-acetylglucosaminyltransferase radical fringe OS=Danio rerio OX=7955 GN=rfng PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009778 (this species only) · gene tree & orthology

Pfam domain

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

InterPro

InterPro term	Type	Description	Source
IPR003378 all species →	Domain	Fringe-like, glycosyltransferase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10811 all species →	FRINGE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0016757 all species →	Molecular Function	glycosyltransferase activity	Interproscan
GO:0008375 all species →	Molecular Function	acetylglucosaminyltransferase activity	Interproscan
GO:0008593 all species →	Biological Process	regulation of Notch signaling pathway	Interproscan
GO:0033829 all species →	Molecular Function	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K05948	FNG; fringe	EC:2.4.1.222	Glycosyltransferases	ko01003	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_030439-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

58.8Max TPM

29.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	27.57	34.16
polyp at pH7 6	18	18	29.69	37.38
coral polyp · control treatment	16	16	36.42	47.90
coral polyp · oil and dispersant treatment	16	16	28.50	49.66
coral polyp · oil treatment	16	16	35.65	47.88
coral polyp · dispersant treatment	16	16	13.23	24.06
Polyp	10	10	37.65	58.83

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.16
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.94
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.65
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.99
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.82
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.59
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.70
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.96
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.66
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.29
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.09
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.37
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.02
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.36
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.21
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.90
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.84
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.67
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.38
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.34
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.31
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.17
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.46
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.36
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.05
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.78
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.55
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.16
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.62
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.16
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.35
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.26
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.89
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.85
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.70
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.90
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.08
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.22
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.28
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.60
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.25
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.47
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.22
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.75
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.07
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.82
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.86
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.37
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.26
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.32
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.19
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.66
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.16
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.43
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.13
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.62
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.29
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.12
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.20
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.17
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.88
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.15
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.60
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.43
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.55
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.43
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.18
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.88
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.46
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.69
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.99
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.17
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.06
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.87
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.73
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.03
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.96
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.86
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.38
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.50
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.43
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.66
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.73
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.06
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.51
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.91
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.86
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.46
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.35
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.31
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.00
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.64
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.58
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.08
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.83
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.21
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.55
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.34
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	58.83
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	53.07
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	51.25
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	45.03
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	38.31
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	29.97
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	27.34
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	26.35
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	25.84
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	20.46

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.