Gene detail

Detailed information of OS493_019581-T1 in Lophelia pertusa

Genomic Location: scaffold_69:175982...180556
NR annotation: KAJ7378890.1, hypothetical protein OS493_019581 [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
Q9SZ30	Imidazole glycerol phosphate synthase hisHF, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=HISN4 PE=2 SV=1
Q9P4P9	Imidazole glycerol phosphate synthase hisHF OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) OX=227321 GN=hisHF PE=3 SV=2
O94303	Imidazole glycerol phosphate synthase hisHF OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=his4 PE=3 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0011846 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00977 all species →	His_biosynth	Histidine biosynthesis protein	Family	Interproscan
PF00117 all species →	GATase	Glutamine amidotransferase class-I	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029062 all species →	Homologous_superfamily	Class I glutamine amidotransferase-like	Interproscan
IPR014640 all species →	Family	Imidazole glycerol phosphate synthase HisHF	Interproscan
IPR013785 all species →	Homologous_superfamily	Aldolase-type TIM barrel	Interproscan
IPR004651 all species →	Family	Histidine biosynthesis, HisF	Interproscan
IPR006062 all species →	Family	Histidine biosynthesis protein	Interproscan
IPR017926 all species →	Domain	Glutamine amidotransferase	Interproscan
IPR011060 all species →	Homologous_superfamily	Ribulose-phosphate binding barrel	Interproscan
IPR010139 all species →	Family	Imidazole glycerol phosphate synthase, subunit H	Interproscan
IPR050064 all species →	Family	Imidazole glycerol phosphate synthase HisA/HisF	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21235 all species →	IMIDAZOLE GLYCEROL PHOSPHATE SYNTHASE SUBUNIT HISF/H IGP SYNTHASE SUBUNIT HISF/H	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000105 all species →	Biological Process	L-histidine biosynthetic process	Interproscan
GO:0000107 all species →	Molecular Function	imidazoleglycerol-phosphate synthase activity	Interproscan
GO:0016763 all species →	Molecular Function	pentosyltransferase activity	Interproscan
GO:0016833 all species →	Molecular Function	oxo-acid-lyase activity	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
K01663	HIS7; imidazole glycerol-phosphate synthase	EC:4.3.2.10	Histidine metabolism	ko00340	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_019581-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

109TPM > 0

7Conditions

46.5Max TPM

12.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.43	14.05
polyp at pH7 6	18	18	9.45	14.35
coral polyp · control treatment	16	16	12.83	19.66
coral polyp · oil and dispersant treatment	16	16	22.17	46.53
coral polyp · oil treatment	16	16	11.50	18.02
coral polyp · dispersant treatment	16	16	17.15	38.61
Polyp	10	9	3.39	6.85

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.05
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.93
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.84
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.84
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.65
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.61
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.86
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.24
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.98
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.16
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.99
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.13
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.00
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.78
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.77
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.84
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.69
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.46
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.35
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.84
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.34
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.82
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.40
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.09
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.01
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.95
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.79
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.39
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.44
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.72
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.25
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.20
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.01
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.11
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.82
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.51
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.66
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.35
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.97
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.57
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.52
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.99
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.98
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.87
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.69
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.22
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.13
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.99
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.90
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.40
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.12
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.84
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.53
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.81
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.55
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.94
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.49
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.04
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.07
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.45
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.44
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.08
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.65
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.03
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.18
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.75
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.59
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.08
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.02
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.81
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.76
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.46
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.61
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.88
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.24
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.91
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.45
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.11
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.82
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.31
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.11
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.73
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.63
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.16
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.61
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.60
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.66
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.22
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.51
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.93
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.69
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.82
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.28
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.56
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.39
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.15
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.09
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.07
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.60
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.14
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.85
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.64
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.60
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.92
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.08
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.26
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.82
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.47
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.26
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.