Gene detail

Detailed information of OS493_005937-T1 in Lophelia pertusa

Genomic Location: scaffold_12:2581010...2589276
NR annotation: KAJ7339538.1, hypothetical protein OS493_005937 [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
A5PK45	Procollagen galactosyltransferase 1 OS=Bos taurus OX=9913 GN=COLGALT1 PE=2 SV=1
Q8K297	Procollagen galactosyltransferase 1 OS=Mus musculus OX=10090 GN=Colgalt1 PE=1 SV=2
A0JPH3	Procollagen galactosyltransferase 1-A OS=Xenopus laevis OX=8355 GN=colgalt1-a PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003179 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01755 all species →	Glyco_transf_25	Glycosyltransferase family 25 (LPS biosynthesis protein)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002654 all species →	Family	Glycosyl transferase, family 25	Interproscan
IPR029044 all species →	Homologous_superfamily	Nucleotide-diphospho-sugar transferases	Interproscan
IPR050757 all species →	Family	Collagen-modifying Glycosyltransferase 25	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10730 all species →	PROCOLLAGEN-LYSINE,2-OXOGLUTARATE 5-DIOXYGENASE/GLYCOSYLTRANSFERASE 25 FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0050211 all species →	Molecular Function	procollagen galactosyltransferase 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
K11703	GLT25D; collagen beta-1,O-galactosyltransferase	EC:2.4.1.50	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_005937-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

109TPM > 0

7Conditions

18.4Max TPM

6.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.45	11.83
polyp at pH7 6	18	18	8.17	13.30
coral polyp · control treatment	16	16	8.44	18.39
coral polyp · oil and dispersant treatment	16	15	4.02	6.38
coral polyp · oil treatment	16	16	5.89	16.54
coral polyp · dispersant treatment	16	16	5.58	11.33
Polyp	10	10	2.82	5.72

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	-	11.83
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.42
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.06
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.23
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.06
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.88
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.84
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.65
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.57
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.54
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.52
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.44
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.02
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.74
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.45
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.41
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.30
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.12
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.30
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.49
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.99
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.84
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.47
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.94
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.65
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.59
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.90
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.04
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.29
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.18
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.93
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.60
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.42
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.41
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.09
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.39
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.08
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.89
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.16
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.69
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.56
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.70
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.68
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.62
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.40
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.90
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.20
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.75
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.53
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.29
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.19
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.38
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.35
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.27
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.19
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.84
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.43
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.11
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.72
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.32
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.01
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.29
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.38
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.58
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.51
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.54
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.53
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.42
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.21
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.92
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.88
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.62
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.90
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.23
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.10
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.97
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.86
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.78
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.66
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.66
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.33
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.11
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.90
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.56
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.03
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.46
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.06
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.76
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.50
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.49
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.35
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.64
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.35
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.35
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.18
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.21
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.72
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.71
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.36
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.61
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.60
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.50
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.30
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.65
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.94
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.79

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.