Gene detail

Detailed information of OS493_008773-T1 in Lophelia pertusa

Genomic Location: scaffold_20:3919241...3925592
NR annotation: KAJ7386622.1, hypothetical protein OS493_008773 [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
Q7T3H9	Putative hydroxypyruvate isomerase OS=Danio rerio OX=7955 GN=hyi PE=2 SV=2
Q6CZ23	2-oxo-tetronate isomerase OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) OX=218491 GN=otnI PE=1 SV=1
Q5T013	Putative hydroxypyruvate isomerase OS=Homo sapiens OX=9606 GN=HYI PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003862 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01261 all species →	AP_endonuc_2	Xylose isomerase-like TIM barrel	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR026040 all species →	Family	Hydroxypyruvate isomerase-like	Interproscan
IPR036237 all species →	Homologous_superfamily	Xylose isomerase-like superfamily	Interproscan
IPR050417 all species →	Family	Sugar Epimerase/Isomerase	Interproscan
IPR013022 all species →	Domain	Xylose isomerase-like, TIM barrel domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43489 all species →	ISOMERASE	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_008773-T1. This gene does have a gene model — the search simply returned no hit.

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_008773-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_008773-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

15.1Max TPM

7.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.78	12.10
polyp at pH7 6	18	18	7.84	14.48
coral polyp · control treatment	16	16	7.99	15.07
coral polyp · oil and dispersant treatment	16	16	7.33	14.63
coral polyp · oil treatment	16	16	7.08	13.03
coral polyp · dispersant treatment	16	14	5.76	9.41
Polyp	10	10	5.83	9.19

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.10
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.91
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.47
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.91
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.39
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.26
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.78
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.14
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.99
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.77
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.69
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.65
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.63
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.03
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.95
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.65
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.96
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.84
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.48
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.79
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.38
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.76
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.47
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.86
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.46
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.23
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.83
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.69
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.21
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.09
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.20
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.90
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.82
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.45
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.13
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.07
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.55
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.08
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.50
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.40
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.07
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.11
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.36
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.21
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.09
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.93
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.46
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.41
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.07
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.97
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.62
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.63
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.85
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.50
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.37
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.96
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.99
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.74
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.61
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.35
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.78
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.79
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.30
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.61
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.38
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.87
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.49
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.03
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.07
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.88
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.63
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.76
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.40
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.36
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.29
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.22
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.96
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.47
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.38
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.86
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.44
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.45
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.41
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.15
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.25
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.32
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.26
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.97
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.47
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.07
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.04
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.93
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.36
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.20
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.79
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.19
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	8.14
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.30
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.17
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	6.12
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.07
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.91
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.89
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.77
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.73

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.