Gene detail

Detailed information of OS493_031667-T1 in Lophelia pertusa

Genomic Location: scaffold_223:223953...239222
NR annotation: KAJ7389423.1, hypothetical protein OS493_031667 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

OS493_031667-T1

ATGGGAAATGCCATGCAGGCTGACAACCTCAGTCTGGCACGCATGAGGAATGTGGTTAGAAAAGTAACAGCTCTCCGTGGCTGCTTTATTGGAAGTTCACGTATCTCGCGTGATACACAACAGTGTCTCCCAGTGGCTACATTCGACAATACCAGTATTTTAACTGCTCAAGATACACCAAAGCACTCGCTTGGGCGTTATAAAAACATTTCAAGTTGCGTGTTAGAATGCTGTGACAGAGAAAACTGCGACCTGGTGCTGTTCGATGGCAGTTTGTGTTATGGCGTGTTCTGTTCAACGCAAAGCGTTTGTCGTTTTCAAACAGCGCGGGAAGGACAAAGGTCATATCAGGCTGTGTTGTTAAATAATGCGTTTAAAGGAGATAGTTTTCCGAAGAGTAAGGACAGTGCCCAAACTACACATCCTTATTCCAACCAGCACAGAGTCAGTGTAAACTTCACCCAACCAAGTGGTCTCGAAGATACAAAAAGTAAATTAAACAGCCAAGAGGATCAAAATGGGAAACAAGAGGCTCTACATGAGAAAAAGGCGTTGTCTACGAAACGAAAAGATAGACTTGCAACTAGAAAGAAAACGCAAGGCCAAAGGAAGCGTCCTAAAGTCAAGGCGAAAGTCAGAAGTAAAGTCCAAGTTGCAAACATGAAACAAAATAAAACTAAACACAAAGATGGTCAAAAGTGTAAAATCAAGCGAATAACAAACAATGCCACTTTACACTCGGGTATGGACGCAGGAAACTTTAAACTACACGGAAAATCAAATAACATTACACATTGCGCAGATCTCTGTTGTCTGGACCGACTGTGTGATATCGCCCTTATCATGACTGGCCGTTGTTATACTGTGCAGTGTTATAGCATGAAAGACTGTCAATCAAAGAATGCTGAGAACAAATCCCCTGATATTGCCATAGCGTATATAGATAATGCTTGGAAAAAGTGGCGCATCAAACAAGCTGAACACGTGAGACATCACGTGCAAAGAACCAAGAAAACGGTGGTGCCTAATCCAAATGAAGGTAACATAGGCGACATTCTTGATTCAATCCGGTTCCTGAATGGACCCTCCACCGTCACCTTAGACATGAAGTTCAATTTCCTTCGGCAGTGCGCTCTTTATGTTGAACCAGAAAATGCCACTAAGACAGTTCACGGCTGGGTTACACCTCGATATACTCCTGTTAAATATCTTTACCAGGCTCCTAGTGGAACTCCTCCGCCTCTTGGCATGCGATCTGCCGTACCACTTGGAGGAATGGGCACAGGATCACTGGAGCTCAGGGCTGACGGATCAATCCATGAATGGACCCTTGAGAACCAGTCTCCGGCTGGCTCGGCCAAACTCGGCCCAGGTGCATTGGATAAAGCAGTTCTCGGTGTACGAATAAGCTCTTCGTCGGGAACAAAAGCTGCCCTTCTACGAACACACCCTCCCCCTGGGTACCCTGGTGTGAAAGAATTGTCATACTCAGGTTCCTTTCCAGTTTCACTGCTCAGTGTTAAGGACGACAGATTTCTTGGTGTAGAAATGGACTTATTTGCGTATGGGACTCTCCGTACAAGGAAGACTGATTTATCTTTTGTTCCTGGAGTAACGTTTACGCTGAGTGTTAAAAACCCAACTGACAAGGAAGTGAACGTGTCTTTCTTGTTTAACATTCCTCTTGGTGAACAACCAGACACATCAAGAGATGGTAACAATATAGAAACTATAGTTGATGTAGAGTCGTCAGCTCAGTGTGCGGCCATGTGTAATGAAGATGACCGCTGTATGGCGTGGAGCTATGACAAGAACAACTGTTCCTTGAAGGACTCTATGCCACTTCACGCTTACAGGGCTGGCGTCACTTCCGGCGTGAAAGGCAGATGGAAAATAAATGGAGACATGTTGACTTGCAAACGACCAGGAAACTTCCCTAACAGCGGAAGTACTACATTGCTGTCGATCAACACGAACAAACCAACGTTCGCTGTCACGGATGACTTCCGGTCCGTGTGGGAAGCGTTCGAATCGAGTGGAAGGTTGAGAAAGAGGATCGAAGCTACAGGCTTTCATGGAACGATTTCTGTTGGGGCAAGGTTACCTTCCGGTATAACTGAGACATTGACATTCATTTTAGCCTGGTATTATCCTAACAGAGATCACACAGGACAAAGAGTTGGGCAGTATTACAGCAATCTATTCAATTCCAGTGAGGATGTGGCCAACCATATGCGAGACAACCTTCTCGCCAACTTGAAAGACATTATATCCTGGCAGTCAAACATTGTTCCACCAATACCCGCCTCCTCTCCCCCACAGGATCACGCTGTTCAATCTTCGCTCCCTGAATGGCTTCAAGATCACCTTGTTAACAGTTTGAGTTTTTGGAGAAGTGGATTCCGAGTGGCTGACGGCAGGTGGCGACAGTGGGAAGCTTTAGACTGCAATGATATCGATTCAGTTCACAATGATTTCCAGAGAGAGCTACCTTACCTTGTGTTCTTTCCAGAATTACTGGAAAGCGTCGTGAGAGCCTGGGCGCGATACCAGCACCCAGGTGGATGGATACAGGAGACTTTACAATTTCAGTGGGGATGCCATAACCGGACAAACCGGTTAGACACCCCTGGCGGGAGAGTTATGGCGGATGTCACGCCGGCCTTTCTTGCGCAGTTTTATCATCTTTACCTGTGGACGGGCAACCAAAAGCTCCTGCAAGACCTCTGGCCAGCGGCCCGCAAGGCATTGATTTGGCTCATGCGCTTCAGCACAGGGGGTTCGGGTCTTCCGTTACGTAAAACCTGCACGTATGACATAATTTATCTCGAGGGCTACGACCACACGACCTACAACAGTGTGATGTATCTGTTGGGTTTGCGGGCTGGTAAAGCTCTTGCGGAGACGCTTGGAGAAACACAACTGGCTCAGACGATTCAATTAGCGTTTGAGTATGGAAAAGCTAAAATGGACAGGACTTTGTGGGACGAGGAAGAGGGATTTTACCACTCTTGGTGGGATCACAAGAAAGGCTCGCCTGATTGGCTGATGACAGACTCTCTGTATGGGCAAGTTTGGGCCTATGCTTTGGGTCTTGGGAATCTCCTTGATCCTTATAAAATGAAAAGACATCTGTTAAAAGAACGAGAACTCAATGACACGCCTTATGGACTGCGCGTGCTCACAAAGGGTACAACTGCAAACAAATTGGCAAAGAAAGCGAACACAACTGTTCAACAAGTAATGAGACAGAAAAGAAGAATCCACCGAGAGGAGGCTGTTGCACATCTGGACAGCTTCTTTAGCGAAGTTTCAGGATTACAAAGGAAGTCTTCTGTGGACGAAAATGTCGATTTTTCGACGTTTACTGTGACGAAAAATCGACCAAAAAACAAAACTTCCTCCGCTAAAAATAAAACAAGCAAGGCTGCACGTCAATTATCTACAACGAAACATCACGTGAAGAAAGTCGAAATAAAAATGAAGAGAAGACAAAATGGACCAGTAAATAATTCGAATACACTGGACAAATCTGGGCGTCCAAACAAAATAATTTCAATGCAAGAAACTCTTAATCACAAAAACTGCTTTGCTCTTGAAGAGGAGAGCAAGTTCAACTCCATTTGGATGGGAAGCGATGCCGATTGGACCACGCTGAACATCAACCTTGGAATGGATCCTGCAGACGCGCTCAAACAAGCTGAGAAAGCGCTAGAACACTACAGAACAAATCTAAACGACTTCTGGAATATTCACGGTTTGACCGCTGGCCAAGGTTATGGCGTGGACGGTCAGCCCTGGTGCACGTCACATTACAGTTTCCACTTGGTTCTGTGGCACATCCCGCTGGCTCTCTCTGGTCAGCGGTATAGCGCGGTGGAACAGAAATTGACGTTTGAACCAAAATTTAAAGTCCCGTATGCACTTCCGTTTTTCACTCCTTTTGCGAGCGGAACAGTTCAAGCCAAGAAGCTCAATGGGAGGATTAAGTACATGGTGACCGTGACATCCGGGAAACTCGAGGTCATATTATTAGCCGTATCAAAGAGCATGCTTCCAAAGACTAAAGTTAGCTTGAGTCAGGGCGAGTACGTTAGTTGGGAAAGGAAGTAA

Transcript

OS493_031667-T1

Protein

UniProt (Swiss-Prot top hit)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001205 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04685 all species →	DUF608	Glycosyl-hydrolase family 116, catalytic region	Repeat	Interproscan
PF12215 all species →	Glyco_hydr_116N	beta-glucosidase 2, glycosyl-hydrolase family 116 N-term	Family	Interproscan
PF14295 all species →	PAN_4	PAN domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006775 all species →	Domain	Glycosyl-hydrolase family 116, catalytic region	Interproscan
IPR000177 all species →	Domain	Apple domain	Interproscan
IPR052566 all species →	Family	Non-lysosomal glucosylceramidase	Interproscan
IPR011106 all species →	Domain	Seven cysteines, N-terminal	Interproscan
IPR008928 all species →	Homologous_superfamily	Six-hairpin glycosidase superfamily	Interproscan
IPR024462 all species →	Domain	Glycosyl-hydrolase family 116, N-terminal	Interproscan
IPR012341 all species →	Homologous_superfamily	Six-hairpin glycosidase-like superfamily	Interproscan
IPR003609 all species →	Domain	PAN/Apple domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12654 all species →	BILE ACID BETA-GLUCOSIDASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004553 all species →	Molecular Function	hydrolase activity, hydrolyzing O-glycosyl compounds	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005576 all species →	Cellular Component	extracellular region	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0008422 all species →	Molecular Function	beta-glucosidase activity	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K17108	GBA2; non-lysosomal glucosylceramidase	EC:3.2.1.45	Other glycan degradation	ko00511	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_031667-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

97TPM > 0

7Conditions

2.2Max TPM

0.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	0.37	0.93
polyp at pH7 6	18	11	0.45	2.17
coral polyp · control treatment	16	16	0.65	1.99
coral polyp · oil and dispersant treatment	16	15	0.39	0.99
coral polyp · oil treatment	16	16	0.50	1.35
coral polyp · dispersant treatment	16	14	0.25	0.66
Polyp	10	8	0.19	0.65

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.93
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.90
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.53
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.51
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.45
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.42
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.41
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.39
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.38
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.34
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.28
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.28
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.21
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.15
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.13
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.07
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.17
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.66
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.05
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.04
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.55
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.40
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.34
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.32
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.25
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.23
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	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
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.99
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.45
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.33
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.96
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.81
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.71
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.70
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.56
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.41
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.31
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.29
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.28
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.22
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.17
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.09
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.07
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.99
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.94
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.68
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.63
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.61
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.57
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.35
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.29
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.28
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.22
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.18
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.17
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.15
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.15
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.10
SRR16705977	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	1.35
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.29
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.79
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.69
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.65
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.54
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.53
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.46
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.38
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.31
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.25
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.24
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.21
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.09
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.06
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.66
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.43
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.41
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.39
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.34
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.31
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.25
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.25
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.18
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.18
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.17
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.17
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.16
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.10
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.65
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.63
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.16
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.16
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.11
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.11
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.05
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.03
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
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.