Gene detail

Detailed information of XP_001630002.3 in Nematostella vectensis

Genomic Location: NC_064042.1:1258314...1265046
NR annotation: XP_001630002.3, mannose-6-phosphate isomerase [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_001629952.3

CAGGCAAGGTTTTGCTTCAATGATCCGCGATCACTCGCTCAGCGGACTCACTTATTAGACGTGGTACCAAGATGGCGGAAGTGGTACAGCTTAGATGTGCGGTGCAGTCGTACGCATGGGGGAAGATAGGGGCAGACAGTGCGGTAGCACAGTTAGCAAAGGGCGACCCCTCTTTCGTCCTGGAAAATAATAAACCCTATGCAGAGCTTTGGATGGGAACTCACCCTAATGGGCCCTCAACTATCTGCGACAGTGATGGCACATCACTATCAGAATGGATATATAGGCATAATGGCTGCTTGGGAAACAAAGTGACTGAGATGTTTAGTGGCAAGCTTCCCTTCCTGTTTAAGGTCTTATCTGTCAATAAGTCATTGTCTATTCAAGCTCACCCAAACAAACATCATGCTGAACAGCTACATGCTGCAAGACCAGATATATATAAAGACCCAAACCATAAACCTGAAATGGCAATAGCAATCACAGACTATGAGGGGCTGTGTGGTTTCCGACCTGTGAGTGAAATTAAGGAATTCCTTCAATCTGTGCCGGAACTGGCTTCTGTTATTGGAGAGCAGCCATGTGCTTTGCTCTTAGGTAGTAATGATAAGGCTTCCGAATGTGAAGGTATCAAGCAGTGCTTCTCCTCACTCATGACAAGAGATGAGATTGCGGTGACCAAACATCTTAGTGAGCTACTAGACAGAATTAAGACCATGAAGAGTGCTGAAATCGATGTAACAGGCTGCCTGGGAGATCTGTTTCTAAGCTTACATGGGCAGTTCCCTGGTGACATTGGCTGTTTCTGCATCTACTTTCTAAACCATGTGATGCTAAAGCCTGGTCAAGCCATGTTCTTGGGACCAAACCTTCCGCATGCTTACTTATCTGGAGACTGCATGGAATGCATGGCGTGCAGTGACAATGTTGTACGAGCTGGCTTAACACCTAAATACAAGGATGTCCAGACTCTGTGTGATATGCTAGATTATAGTCCAGGCACTGCAGAAGATAACATTTTCCCTTCTCAACTGGACCCTGAGGATTCACATGTAGTGGTGTATGACCCACCAGTCAAGGACTTCTCTGTTGCTAGAATCAATCTTCCTGCCTCTCTGTCAAGTTACACTGTAAAGGCAGTGGAGGGTCCAAGTATACTTATTGTGATATCTGGTGGTGGTGAGACTTTAACACAGCAACCACTCAAGTTAGAGCGTGGCGCTGTGCTATTTATGCCCGCGTCCGTGGAACTGCCTGTGAAGACTGGGAATGAAGGGCTTTTGGTCTTTAGAGCTTACTGTGACCCTAAATGATACAACTTGCATGATCCACGACGAGAAGCATTTcctgaggggggtggggggggcgGGGTATCCAACGAATAGGAAGCGTACACTAAGAAACCGCGTGACTTCTTGAGTGACAAACTAACGCCTAAATAAGCAGAGAAATGTCTTGCGGCCGAAAAAATAGCGATGAACAAAAAATttatttcaatgaaaataagcctttTTGTCAAAGAATctttctggctgattcgtaagcgctgaataagtttctttttattttgttcttattttgccgccaaaagccgggttcgagtttgccacccaaaaattCAAGTAATTTCTAAGGATGAGTCGCGTATCACTTAGTTCGCATAAACGAACTCGTGTCAAAGGCCACAAATCGAATTGAGTATTAGATTTTATGTGGAAACTGggcattatatattattttgggAAGTGTAAGGAATCGTTTGTACCAACACTGTCAATATGAACGAGAAAAACTCGTTGTGTCATGGTTACCGATACTTTCATTCTTTTCACACACTGCACATTATCtttcaattttatttattactagTTAATATTATCTtccaattttatttattacttgCAAATATGTCAAAACACGCAAAAGAGACATTCGTGTCGATAGCACTAAAAGAAGCAGAATACCCCCGCATCTGTAGGTTAACCGATGGGGGAAAATGCCATTTTGTATTTGAAACAGAAAATTTAATTGTTTGCCAAATTGATCATATTTTGTCTTGCCAACTTTGTAAAGGCACATAGGCTAGAGCGGATAATCTATGTGTAAAACAAGAGACCCAATAACAGCACGCGCAAAAATGTCAACGCAAAAAGGCTGCTGTACAAATGGTCTCTTggtataatattaaaaaaaaaaaacagtaaaaattAATGCGCGAGAAAATAGGTGCTAAGGTGCagtattgtatttttaaatgcGACAgtattttggctgagcgtcactggacgagagaatTCTAGAGGCTCTAGTACCCAGGgtataaatgtttttatttttcagtgacatattttgtttattaacaGGGACTGCGGACGGGAAGGGGCAGGGGGTTTACAAGTGGGTCCCCTACTTTTCTGAGAGGATGTGTGTTTTTTATGCAGGTGCGTACCcaggaaggggaggggggtgggggcgcagtcataggtatcacatGGAAATAGCATCGTATATGAAGATTccttaaataaaaatgacccATGGCCTTCAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q3SZI0	Mannose-6-phosphate isomerase OS=Bos taurus OX=9913 GN=MPI PE=2 SV=3
P34949	Mannose-6-phosphate isomerase OS=Homo sapiens OX=9606 GN=MPI PE=1 SV=2
A5A6K3	Mannose-6-phosphate isomerase OS=Pan troglodytes OX=9598 GN=MPI PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005470 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01238 all species →	PMI_typeI_C	Phosphomannose isomerase type I C-terminal	Domain	Interproscan
PF20511 all species →	PMI_typeI_cat	Phosphomannose isomerase type I, catalytic domain	Domain	Interproscan
PF20512 all species →	PMI_typeI_hel	Phosphomannose isomerase type I, helical insertion domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018050 all species →	Conserved_site	Phosphomannose isomerase, type I, conserved site	Interproscan
IPR016305 all species →	Family	Mannose-6-phosphate isomerase	Interproscan
IPR014710 all species →	Homologous_superfamily	RmlC-like jelly roll fold	Interproscan
IPR001250 all species →	Family	Mannose-6-phosphate isomerase, type I	Interproscan
IPR046456 all species →	Domain	Phosphomannose isomerase type I, C-terminal domain	Interproscan
IPR011051 all species →	Homologous_superfamily	RmlC-like cupin domain superfamily	Interproscan
IPR046457 all species →	Domain	Phosphomannose isomerase type I, catalytic domain	Interproscan
IPR046458 all species →	Domain	Phosphomannose isomerase type I, helical insertion domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10309 all species →	MANNOSE-6-PHOSPHATE ISOMERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004476 all species →	Molecular Function	mannose-6-phosphate isomerase activity	Interproscan
GO:0009298 all species →	Biological Process	GDP-mannose biosynthetic process	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	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
K01809	manA, MPI; mannose-6-phosphate isomerase	EC:5.3.1.8	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_001630002.3 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

36TPM > 0

16Conditions

8.5Max TPM

3.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	2	4.85	8.47
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	5.39	7.18
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	3.98	4.41
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	4.44	5.15
whole 6 week old aboral regenerate · regenerate uncut	3	3	4.83	5.56
whole 6 week old aboral regenerate · regenerate 4hpa	3	1	1.52	4.57
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	3.96	6.23
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	6.38	8.33
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	2.88	4.63
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	2.56	4.34
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	4.40	5.06
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	4.23	7.09
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	4.81	5.95
whole 6 week old aboral regenerate · regenerate 48hpa	3	1	2.32	6.96
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	4.06	6.83
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	1.43	4.29

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	8.47
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	6.10
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	0.00
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	7.18
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	5.04
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	3.96
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	4.41
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	3.78
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	3.76
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	5.15
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	4.78
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	3.39
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	5.56
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.57
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.37
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	4.57
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
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	6.23
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	5.64
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	8.33
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	6.54
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	4.26
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	4.63
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	4.00
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	4.34
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	3.35
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	5.06
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	4.27
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.88
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	7.09
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	5.61
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	5.95
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	5.90
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	2.58
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	6.96
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	6.83
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	5.36
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	4.29
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.