Gene detail

Detailed information of OS493_001782-T1 in Lophelia pertusa

Genomic Location: scaffold_4:1078174...1085068
NR annotation: KAJ7375051.1, St6galnac4p [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
Q9H4F1	Alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3-N-acetyl-galactosaminide alpha-2,6-sialyltransferase OS=Homo sapiens OX=9606 GN=ST6GALNAC4 PE=1 SV=2
Q9BVH7	Alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5 OS=Homo sapiens OX=9606 GN=ST6GALNAC5 PE=1 SV=1
Q9R2B6	Alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3-N-acetyl-galactosaminide alpha-2,6-sialyltransferase OS=Mus musculus OX=10090 GN=St6galnac4 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008869 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00777 all species →	Glyco_transf_29	Glycosyltransferase family 29 (sialyltransferase)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR038578 all species →	Homologous_superfamily	GT29-like superfamiliy	Interproscan
IPR001675 all species →	Family	Glycosyl transferase family 29	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45906 all species →	-	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001574 all species →	Biological Process	ganglioside biosynthetic process	Interproscan
GO:0001665 all species →	Molecular Function	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity	Interproscan
GO:0006486 all species →	Biological Process	protein glycosylation	Interproscan
GO:0008373 all species →	Molecular Function	sialyltransferase 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_001782-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_001782-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

108TPM > 0

7Conditions

12.5Max TPM

5.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.41	7.56
polyp at pH7 6	18	17	4.91	11.43
coral polyp · control treatment	16	16	7.51	12.48
coral polyp · oil and dispersant treatment	16	16	6.28	12.32
coral polyp · oil treatment	16	16	7.50	10.77
coral polyp · dispersant treatment	16	16	4.86	9.90
Polyp	10	9	3.97	8.56

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.56
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.86
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.18
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.75
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.89
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.80
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.62
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.36
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.26
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.85
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.81
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.71
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.52
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.51
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.24
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.19
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.78
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.41
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.43
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.78
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.18
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.50
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.02
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.19
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.16
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.98
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.84
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.83
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.76
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.53
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.46
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.45
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.41
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.48
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.65
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.25
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.22
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.01
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.29
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.59
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.13
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.56
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.43
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.86
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.72
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.29
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.04
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.03
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.32
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.71
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.88
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.05
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.93
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.38
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.98
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.17
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.20
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.93
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.54
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.46
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.24
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.29
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.20
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.17
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.77
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.35
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.32
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.29
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.34
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.07
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.89
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.38
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.55
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.29
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.46
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.23
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.82
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.62
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.97
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.90
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.67
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.83
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.66
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.60
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.56
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.29
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.86
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.85
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.43
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.66
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.40
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.02
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.99
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.33
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.76
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.56
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.35
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.36
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.48
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.35
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	2.03
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.58
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.10
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.92
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.