Gene detail

Detailed information of OS493_000178-T1 in Lophelia pertusa

Genomic Location: scaffold_1:1990205...2000286
NR annotation: KAJ7394371.1, hypothetical protein OS493_000178 [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
O09173	Homogentisate 1,2-dioxygenase OS=Mus musculus OX=10090 GN=Hgd PE=1 SV=2
Q5RF05	Homogentisate 1,2-dioxygenase OS=Pongo abelii OX=9601 GN=HGD PE=2 SV=1
Q93099	Homogentisate 1,2-dioxygenase OS=Homo sapiens OX=9606 GN=HGD PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005548 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF20510 all species →	HgmA_N	Homogentisate 1,2-dioxygenase N-terminal	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR014710 all species →	Homologous_superfamily	RmlC-like jelly roll fold	Interproscan
IPR005708 all species →	Family	Homogentisate 1,2-dioxygenase	Interproscan
IPR046452 all species →	Domain	Homogentisate 1,2-dioxygenase, N-terminal domain	Interproscan
IPR011051 all species →	Homologous_superfamily	RmlC-like cupin domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11056 all species →	HOMOGENTISATE 1,2-DIOXYGENASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004411 all species →	Molecular Function	homogentisate 1,2-dioxygenase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006559 all species →	Biological Process	L-phenylalanine catabolic process	Interproscan
GO:0006570 all species →	Biological Process	tyrosine 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
K00451	HGD, hmgA; homogentisate 1,2-dioxygenase	EC:1.13.11.5	Styrene degradation	ko00643	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_000178-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

110TPM > 0

7Conditions

55.1Max TPM

25.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	25.43	41.39
polyp at pH7 6	18	18	24.87	40.83
coral polyp · control treatment	16	16	28.75	48.80
coral polyp · oil and dispersant treatment	16	16	22.45	42.19
coral polyp · oil treatment	16	16	28.59	55.12
coral polyp · dispersant treatment	16	16	24.24	53.04
Polyp	10	10	21.80	34.84

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.39
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.27
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.55
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.26
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.81
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.38
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.99
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.42
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.91
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.47
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.28
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.75
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.71
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.17
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.48
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.39
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.81
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.73
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.83
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.21
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.07
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.50
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.66
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.53
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.39
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.18
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.31
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.43
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.15
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.37
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.10
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.56
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.66
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.34
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.80
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.36
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.79
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.55
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.17
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.13
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.37
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.81
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.34
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.50
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.73
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.32
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.69
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.33
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.68
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.19
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.59
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.22
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.11
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.51
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.36
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.98
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.23
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.84
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.87
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.66
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.26
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.06
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.51
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.17
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.12
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.33
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.80
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.20
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.87
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.77
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.05
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.21
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.13
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.37
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.63
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.46
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.51
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.04
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.48
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.42
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.04
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.45
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.25
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.60
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.54
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.30
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.06
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.82
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.45
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.46
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.22
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.69
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.63
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.22
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.29
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.91
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	34.84
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	34.12
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	30.72
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	24.09
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	22.98
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	19.05
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	16.83
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	15.33
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.63
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.45

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.