Gene detail

Detailed information of XP_001626403.2 in Nematostella vectensis

Genomic Location: NC_064038.1:10058065...10063263
NR annotation: XP_001626403.2, imidazole glycerol phosphate synthase hisHF isoform X1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_001626353.3

TAAGCCGCTGGTTTCCAATGCAAATCGAAGGCGCGAGTGGAAGCCGGTAATATAAAACGTAAACAGAAACGTACGGGAAGACGATACTCAGAATCATGTTTCGTGGTATTTATCCTACTGTGAACAAGTATTTCCTAAGAGGTATTAGCCAAGTCCACACCCCTTCAGTTGCTGTCATTGATTATGGTGCTGGGAATATGCGCAGCCTGGACAATGCACTCAACTACCTTGGCTATAGAATCCGCACAATTAAAGACCCTAAAGAGATAGCATCTGTTGATAAGTTGATACTTCCAGGTGTTGGAGCATTTGGCAGTGCCATGAAGAGATTACAAGATAAAGGATTTGTTGAGCCACTACAGGAGTATATAAAACAAGACCGGCCTTTTATAGGAATTTGTCTTGGAATGCAGATGCTGTTCAGTGGCAGTGAAGAGTTCCCAGATGCTACAGGGTTAGGGGTAATTCCAACACAAGTGAAGCTGCTTAAGTCCCCAGGGCTTGTCGTGCCCCACATGGGATGGAATGGTATGAATATAAGGCGTGAGGGTTCACCACTGATCACCCCTGGGGAATACAACAATGAAAAGGTGTACTTTGTCCATTCATTTGCTGCCCCTTTAGATGACATCACAAAAGACTGGGCTTTGGCAACCACGACTTATGGGAATGAGTTTGTTTGTATGGTTAACCGTGGTAATATTGCTGCCATGCAATTTCACCCTGAGAAAAGTGGTGCTTTTGGTCTTCAACTTCTGAAAAACTACTTGACAAAGTTTCCTGTAGAGAAAAAAAGCACACTTTCTCCCCTGTTACCAGCCACAAGACAAACAGAGCTTGCTAAACGAGTCATAACATCACTAAATGTCCGTACAAATAATATGGGGGAATTAGTGGCAACCAAAGGTGAACAATTTGAAGTAAGAGAAATCATCTCTGATGATGAGGGTAATAAACCTGTCAAAGGTGACGTCAAAGCTGTTGGTGACCCAGTTGAGCTGGGAGAGCGCTTTTTCAGTGATGGTGCTGATGAAATTGCTTTTCTCAATATCACAAGTTTTCGTAGCTCACCTATCCATGATTTAGCCATGCTGAAACTGCTGCGTAAATGTTGCGAGAGGATCTTTGTACCCTTCACTGTGGGGGGTGGTATCAGGGATATTTATGCTCTTGATCCTGATAGTGTGGAAGAAGGCAAGCCTGTGATGAGACAGTTCTCTGCCCTTGAAGTTGCTGCCATGTACTTCAAATCAGGTGCTGATAAAGTATCAGTAGCCAGTGATGCAGTCTATGCAGCGGAAGAATTCATTGCATCAGGCCACAAGAAAACCGGAAAAACTTCTATTGAGAAGATTGCAGAGCGGTATGGCCGCCAAGCAGTTGTCTTAGCTGTTGATACCAAGACTGTTTACGTCCCCTCCCCTGACAGTACTAAACACCATACAGTCAAGGCCCGGTACCCAGGCCCTAATGGTGAGAAGTATGTATGGTGGCAATGTACTGtcaagggagggagggagacaCGTGACGTTGGCGCCTATGAGCTGGTTAAGGCGTGCGAGGAGCTAGGAGCAGGAGAGATTCTGCTGAATAACATTGATAGGGACGGAACCAACCACGGCTATGATCTCGACTTGGTAAAGATGGTCAAAGGAGCCGTCAGCATTCCGGTCATTGCGTCCAGCGGTGCAGGTCACGTGTCGGACTTCGTCGATTTGTTCCGAGAGACGAATGCAGACGGCGCGATGGCCGGTGCCATATTTCACCGAGGCGAAGTCGATATTACTGACGTCAAGGAACATTTAAGGAACGAAGGCTTCACGGTCAGACTCTAGGCCATTACGTAATGCTTGGCTATGCCTTCAAGCTCATAATGTCCTCTGATGTCACGTATATGAAAACCACGGCGGAGTCACGGAAATGTGCAGTCGCGATGAAAGTGTGAATTTTAacttaaaaatataatatatatcatTGAACTGAACTATGTATAACACCTAAATCTGTATAGgggccgaccatttgatatctgaaaAGTACagattattttcctttttgattttttttttttgtgaccAGATGTTTTGctcaatttttatttctttgaaaTGCCGCTGGACCAAGGATTGCTTTGTTCGAGAAGGTTGTTTGCTGTTTTCGGGGGATATTCGTCACCAACCCGTCTGATATCAAATGGTTGGCCCCCAAGGGGGGAAGGGTCTATTTACCAAATATAACGGAATTGTAAATACTTTAATGCACTATTACAAAGGAGTCTTCATGGCGGATTTTCATGTtgaattaatttttttggcttttcaGACATTTGTTTTTCGATCTGGATTTTTGTAATTTGGAGGGCTGTGTTGGGAAATTGAACTCACCTCAACATCAATATGGCAGACATAAAATTACTATTATGCTTTTTACAAGGTGTTcttattatttcttatttatttataactgTGCTTCAGAAATGTTCATTATGAAAACAAGGgtgattttaaaaatcacTTATATTTGGGGGTAATAACGATAATATAATGGGAAAAAATGTATCTAATCTAGCCTATCTTTGATACAACTgatgtatttatattttttatgaattaaTAAATTTGTCTTGAATTCAA

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
PF00117 all species →	GATase	Glutamine amidotransferase class-I	Domain	Interproscan
PF00977 all species →	His_biosynth	Histidine biosynthesis protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011060 all species →	Homologous_superfamily	Ribulose-phosphate binding barrel	Interproscan
IPR010139 all species →	Family	Imidazole glycerol phosphate synthase, subunit H	Interproscan
IPR013785 all species →	Homologous_superfamily	Aldolase-type TIM barrel	Interproscan
IPR050064 all species →	Family	Imidazole glycerol phosphate synthase HisA/HisF	Interproscan
IPR004651 all species →	Family	Histidine biosynthesis, HisF	Interproscan
IPR029062 all species →	Homologous_superfamily	Class I glutamine amidotransferase-like	Interproscan
IPR017926 all species →	Domain	Glutamine amidotransferase	Interproscan
IPR014640 all species →	Family	Imidazole glycerol phosphate synthase HisHF	Interproscan
IPR006062 all species →	Family	Histidine biosynthesis protein	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:0016763 all species →	Molecular Function	pentosyltransferase activity	Interproscan
GO:0000107 all species →	Molecular Function	imidazoleglycerol-phosphate synthase 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 XP_001626403.2 across 48 RNA-seq samples of Nematostella vectensis. 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.

48Samples

38TPM > 0

16Conditions

15.3Max TPM

3.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	5.85	7.98
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	6.00	8.84
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	4.88	6.11
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	4.98	5.25
whole 6 week old aboral regenerate · regenerate uncut	3	3	4.69	6.23
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	6.48	15.32
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	4.68	7.52
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	2.73	2.79
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	2.31	3.55
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	2.02	3.07
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	3.34	3.63
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	3.30	5.01
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	4.69	5.24
whole 6 week old aboral regenerate · regenerate 48hpa	3	1	2.04	6.11
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	2.61	5.09
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	1.26	3.78

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	7.98
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	5.10
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	4.49
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	8.84
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	4.91
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	4.25
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	6.11
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	4.50
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	4.04
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	5.25
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	4.96
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	4.74
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	6.23
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.17
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.67
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	15.32
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	4.12
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	7.52
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	6.52
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	2.79
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	2.78
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	2.61
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	3.55
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	3.38
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	3.07
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	3.00
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.00
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.63
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.53
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	2.87
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	5.01
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	4.88
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	5.24
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	4.83
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	4.00
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	6.11
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	5.09
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	2.74
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.00
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	3.78
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00

Source: CnidoSite RNA-seq expression matrices (NVECT_TPM, StringTie quantification over 48 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.