Gene detail

Detailed information of OS493_004778-T1 in Lophelia pertusa

Genomic Location: scaffold_9:4544185...4545342
NR annotation: KAJ7381179.1, hypothetical protein OS493_004778 [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
P20060	Beta-hexosaminidase subunit beta OS=Mus musculus OX=10090 GN=Hexb PE=1 SV=2
Q29548	Beta-hexosaminidase subunit beta OS=Sus scrofa OX=9823 GN=HEXB PE=1 SV=2
P49614	Beta-hexosaminidase subunit beta OS=Felis catus OX=9685 GN=HEXB PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001007 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14845 all species →	Glycohydro_20b2	beta-acetyl hexosaminidase like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR025705 all species →	Family	Beta-hexosaminidase	Interproscan
IPR029018 all species →	Homologous_superfamily	Beta-hexosaminidase-like, domain 2	Interproscan
IPR029019 all species →	Domain	Beta-hexosaminidase, eukaryotic type, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22600 all species →	BETA-HEXOSAMINIDASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004563 all species →	Molecular Function	beta-N-acetylhexosaminidase activity	Interproscan
GO:0005764 all species →	Cellular Component	lysosome	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0006689 all species →	Biological Process	ganglioside catabolic process	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0030203 all species →	Biological Process	glycosaminoglycan metabolic process	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_004778-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_004778-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

107TPM > 0

7Conditions

37.6Max TPM

10.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.90	25.03
polyp at pH7 6	18	17	9.76	22.12
coral polyp · control treatment	16	16	11.65	28.44
coral polyp · oil and dispersant treatment	16	16	10.14	26.64
coral polyp · oil treatment	16	16	10.89	21.24
coral polyp · dispersant treatment	16	15	10.70	37.64
Polyp	10	9	3.72	8.66

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	-	25.03
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.32
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.76
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.94
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.02
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.72
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.65
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.59
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.48
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.22
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.71
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.67
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.62
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.93
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.92
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.98
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.28
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.12
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.98
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.96
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.94
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.85
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.18
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.05
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.87
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.09
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.77
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.48
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.60
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.35
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.28
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.04
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.02
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.44
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.07
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.85
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.04
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.73
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.23
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.51
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.06
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.98
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.58
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.19
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.18
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.85
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.46
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.20
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.02
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.64
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.91
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.63
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.39
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.11
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.84
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.22
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.55
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.19
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.01
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.71
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.06
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.61
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.96
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.98
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.42
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.24
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.01
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.13
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.76
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.41
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.64
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.88
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.44
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.04
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.14
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.19
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.89
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.85
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.63
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.95
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.64
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.57
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.99
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.85
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.21
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.83
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.76
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.68
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.62
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.51
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.06
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.87
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.28
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.01
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.36
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.66
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.96
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.75
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.26
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.56
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.47
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.28
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.70
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.52
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.