Gene detail

Detailed information of XP_032230640.2 in Nematostella vectensis

Genomic Location: NC_064048.1:6746078...6759203
NR annotation: XP_032230640.2, GDP-L-fucose synthase [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032374749.2

TTGCGGTCTTCCTGTGGTAGTTGCAATAAGCCCGCGGAGCATACTGGTCTTGCTGTTTCCTGAGTGCCGAAAGTTCGAACGCACAAAGTCATTTCGAAGTAAAAATCAGGCGAGAACCATCTTTTCATTTGAGGTGTTGGTCATATCATTACTATGGCAACGAAAAAGGTTCTAGTAACAGGGGGTACTGGTCTGGTGGGCATGGCATTGAAGAAGATAGTCGAGACGGAAGAGTCCCACCCAGATGAAGAGTGGATATTCTTGTCTTCAAAGGATGGGGACCTTACtgaTGCAGAGGCAACAAAGGCCATCTTTGAGAAACATAAGCCCACCCATGTCATTCATTTAGCTGCAATGGTTGGTGGGCTGTTCAAGAACCTTAAATACAATCTGGATTTTTGGAGACTCAACATTAAGATTAATGACAATGTGCTCCATAACTGCTACTTGAATAAGgtccaGAAATGTGTGTCCTGTTTGTCGACATGCATCTTTCCAGACAAGACAACATATCCTATTGATGAAACAATGGTACATAATGGGCCGCCGCATGACTCAAATTTTGGATATGCATATGCCAAGAGGATGATTGACGTACAAAATAGGGCTTATCACATCCAACATGGCTGCCAGTTCACCAGTGTCATCCCGACTAACGTATATGGTCCCCATGACAACTATAACCTAGAGGACTCTCATGTTATTCCTGGGCTTATCCATAAGTGTTACCTTGCTATGAAGGAGGACAAACCATTGATTGTCTGGGGCACTGGGAAGCCAAGAAGACAGTTCATTTATTCATTGGATCTTGCTCGCCTGATGATCTGGGTTCTTCGTGATTACAATGAGATTGACCCAATCATTCTATCAGTGAGCGAAGAGGAAGAAGTGTCAATCAAAGAGGTTGCCGAAATGGTTGCCAAGGGGATGGGCATGAAGAAGGAGCTGGTGCTCGATACAACCAAGTCTGATGGTCAGTTTAAGAAAACTGCTAGCAACGAGAAACTGAAGAAACTACGCCCAGACTTCAAGTTTACCGACCCCCAACAAGCAATCAAGGAAAGTTGTGAATGGTTTCTACAAAATTTTGAGACCTGCCGCAAGTAAAGGCCATTCTTCCATTCACTGTGACGCATGTaggtaggaaaaaaaataaaaggtttCGTAATGTGATGAACAACTGGATTAGGTACAAGCAGTGTGCGCCAGGATAATGGAAGTGAAAATCATAGCACACTATCAGGCCCCAGGTAGAACACAGTTGCAATTGTAGCATTTGCGCAATTGCAATTAAGCCAGCAGTAACCTAGCTTAATTAGCCGTATAAGCCcattgctttgtgatgtgttCCGCGTTACTCGCAGAATCCCTCAACTGCTCGAACGTTAGAAATACCGCTTATTCTAAAAAgatacacatcacaaagcaatgagAGTTGATTGTtacctttattctaggatataagacaattataggacaattacaggaggtgatcagTCATGAAAATATTCGGGCTAGTcactgggattgactggagactgactgagaggttggcTGGGTTATCTTCCATCTCATAGAATCAAGGAAACCGCCCATGGTGTCTTTGTGAGCAGGGGATTTGTTTCAAATTTGTTCTGAATGCTAACCGGCATTGTCTGCCGTCTGAGATCAAAGTACGATTAATCAGCCtctgccagccgccattttgtcatccttgcaaaataccaagtgtgaaaaagcatccatttccatcggcggATTTGAAGAAGCAAATATTTTGGATTGAATTTGGCAAATAAAGCATTTAAAGTTTGTTTTTGAATGGTTATTTTCAGATTTTTACACATTATGTGTCTtccaaaaagaaataacaaaggtgttgCTGGCAAGGTATTTTGACATTCAAATAAAATTACTGTATGTTCAATCCAGCCACTGTGATGTAGATATTTGTTTAGGTCTTActtgatgaaaatgttttgaacGAACCATACTGCCGTGGcaggacagtgctgaataacgtatgcgcatgcgcgtgctctggcgaaaacaaacacaatagtagtgttgaatcgttcgagaaaaggtacgaaaggctgactttaGTCGCTGATTTGTCTAAcagtacagcattaaaaccatactgtacaaaagatgacagatttgtgtgataatgagggagtcataaagaaaattatagccttaggtttggtctagttttcttagcattcgccaaaatgtgacagttcgcccgtaaaaagccgccatttcaaaacaaaagggctggtttaaccgcgcggtactggaactagtcttgcgttctTCATCACTGGCCCGTGGCAGTGAAATCGGAATTAATTGTTGGTTGAGGGTTGAATGGCCGAGTGCAGGAGCCGGATGCTGTATTTATgcaaattttatttatcaatAAAGGAAGGGGAACCTAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8K3X2	GDP-L-fucose synthase OS=Cricetulus griseus OX=10029 GN=GFUS PE=2 SV=1
P23591	GDP-L-fucose synthase OS=Mus musculus OX=10090 GN=Gfus PE=1 SV=3
Q13630	GDP-L-fucose synthase OS=Homo sapiens OX=9606 GN=GFUS PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003097 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01370 all species →	Epimerase	NAD dependent epimerase/dehydratase family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR028614 all species →	Family	GDP-L-fucose synthase/GDP-L-colitose synthase	Interproscan
IPR001509 all species →	Domain	NAD-dependent epimerase/dehydratase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43238 all species →	GDP-L-FUCOSE SYNTHASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0050577 all species →	Molecular Function	GDP-L-fucose synthase activity	Interproscan
GO:0009226 all species →	Biological Process	nucleotide-sugar biosynthetic process	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase 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
K02377	TSTA3, fcl; GDP-L-fucose synthase	EC:1.1.1.271	O-Antigen nucleotide sugar biosynthesis	ko00541	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_032230640.2 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

43TPM > 0

16Conditions

26.9Max TPM

12.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	15.19	21.36
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	9.51	12.11
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	9.51	10.57
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	12.43	15.71
whole 6 week old aboral regenerate · regenerate uncut	3	3	6.98	8.18
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	9.14	13.99
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	7.62	12.25
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	21.76	26.87
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	18.51	20.54
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	16.46	16.92
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	11.70	13.98
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	17.21	20.12
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	16.56	18.13
whole 6 week old aboral regenerate · regenerate 48hpa	3	3	22.92	26.28
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	7.06	10.93
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	3.45	10.35

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	21.36
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	13.21
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	11.00
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	12.11
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	8.87
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	7.55
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	10.57
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	9.08
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	8.87
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	15.71
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	12.97
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	8.61
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	8.18
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	7.25
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	5.52
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	13.99
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	13.41
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	12.25
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	10.60
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	26.87
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	21.82
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	16.60
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	20.54
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	17.81
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	17.18
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	16.92
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	16.62
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	15.83
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	13.98
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	10.81
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	10.30
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	20.12
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	16.11
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	15.40
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	18.13
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	17.45
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	14.09
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	26.28
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	22.94
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	19.56
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	10.93
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	10.24
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	10.35
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.