Gene detail

Detailed information of OS493_031733-T1 in Lophelia pertusa

Genomic Location: scaffold_224:464502...468416
NR annotation: KAJ7382957.1, hypothetical protein OS493_031733 [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
Q08806	Alpha-amylase 2 OS=Schwanniomyces occidentalis OX=27300 GN=SWA2 PE=3 SV=1
Q10427	Uncharacterized glycosyl hydrolase C11E10.09c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=SPCC11E10.09c PE=3 SV=1
P21567	Alpha-amylase OS=Saccharomycopsis fibuligera OX=4944 GN=ALP1 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010381 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00128 all species →	Alpha-amylase	Alpha amylase, catalytic domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006047 all species →	Domain	Glycosyl hydrolase, family 13, catalytic domain	Interproscan
IPR013777 all species →	Family	Alpha-amylase-like	Interproscan
IPR017853 all species →	Homologous_superfamily	Glycoside hydrolase superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10357 all species →	ALPHA-AMYLASE FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0004556 all species →	Molecular Function	alpha-amylase activity	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	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_031733-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_031733-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

7.3Max TPM

2.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	2.56	4.89
polyp at pH7 6	18	18	3.24	4.77
coral polyp · control treatment	16	16	2.45	7.28
coral polyp · oil and dispersant treatment	16	15	2.58	6.90
coral polyp · oil treatment	16	16	2.68	5.44
coral polyp · dispersant treatment	16	16	2.12	3.93
Polyp	10	10	1.96	3.73

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.89
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.76
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.73
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.60
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.18
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.96
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.91
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.67
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.54
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.25
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.13
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.07
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.07
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.01
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.89
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.32
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.77
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.67
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.66
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.63
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.08
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.92
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.88
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.58
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.53
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.76
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.75
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.71
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.39
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.31
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.14
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.14
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.04
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.32
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.28
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.53
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.64
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.57
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.59
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.56
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.12
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.89
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.83
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.69
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.52
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.38
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.31
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.28
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.21
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.83
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.90
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.69
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.53
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.18
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.58
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.20
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.13
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.05
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.93
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.88
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.74
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.57
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.14
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.09
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.59
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.44
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.24
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.03
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.89
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.84
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.76
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.14
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.01
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.64
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.84
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.83
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.36
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.22
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.76
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.54
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.93
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.71
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.63
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.20
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.80
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.49
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.25
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.55
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.50
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.43
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.98
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.97
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.72
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.35
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.73
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.84
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.53
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.10
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.06
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.69
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.57
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.56
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.42

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.