Gene detail

Detailed information of OS493_005746-T1 in Lophelia pertusa

Genomic Location: scaffold_12:418602...418928
NR annotation: KAJ7339352.1, Xyloside xylosyltransferase 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
Q3U4G3	Xyloside xylosyltransferase 1 OS=Mus musculus OX=10090 GN=Xxylt1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005314 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_005746-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR042465 all species →	Family	Xyloside xylosyltransferase 1	Interproscan
IPR029044 all species →	Homologous_superfamily	Nucleotide-diphospho-sugar transferases	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46612 all species →	XYLOSIDE XYLOSYLTRANSFERASE 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016266 all species →	Biological Process	O-glycan processing	Interproscan
GO:0030176 all species →	Cellular Component	obsolete integral component of endoplasmic reticulum membrane	Interproscan
GO:0035252 all species →	Molecular Function	UDP-xylosyltransferase activity	Interproscan
GO:0140560 all species →	Molecular Function	xylosyl alpha-1,3-xylosyltransferase 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_005746-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_005746-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

89TPM > 0

7Conditions

5.2Max TPM

1.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	1.82	5.15
polyp at pH7 6	18	12	0.83	2.85
coral polyp · control treatment	16	16	1.43	4.37
coral polyp · oil and dispersant treatment	16	10	0.27	0.84
coral polyp · oil treatment	16	14	1.01	3.07
coral polyp · dispersant treatment	16	12	0.66	2.69
Polyp	10	9	1.81	3.98

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.15
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.42
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.57
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.99
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.70
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.34
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.15
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.98
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.61
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.54
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.52
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.45
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.78
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.30
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.26
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.09
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.85
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.21
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.17
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.05
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.52
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.31
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.96
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.60
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.53
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.47
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.15
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.15
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.37
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.17
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.97
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.57
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.75
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.57
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.99
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.95
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.82
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.82
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.63
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.60
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.55
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.54
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.31
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.30
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.84
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.59
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.57
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.45
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.30
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.30
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.22
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.21
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.18
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
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
SRR16705994	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
SRR16706004	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	3.07
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.89
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.37
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.32
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.16
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.05
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.04
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.02
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.84
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.84
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.62
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.48
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.25
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.23
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.69
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.06
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.25
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.89
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.77
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.49
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.46
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.42
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.09
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.06
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.03
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705967	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
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.98
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.49
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.48
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.37
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.02
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.47
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.26
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.17
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.82
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.