Gene detail

Detailed information of XP_001622976.2 in Nematostella vectensis

Genomic Location: NC_064041.1:5218242...5235147
NR annotation: XP_001622976.2, serine/threonine-protein phosphatase 2A activator 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_001622926.3

tacctgtggctTTATCTGACCTATAATTATGAAGTACACATGTCGTACATCAGCCGCTGGCTACCAACAAAGGCTCaatatccaagatggcggcaagTGAGGAATCTAAGGTTGCCTTTGTAGAGCCAAAGAGGGAAATTTTCCAACCGCAAGACGTAGCCAAATGGGAGAGCTCACAGGCTTATCATGACCTAGTGGAGTTTATCTTGTTACTGGGAGAGGCagtaaaaaacaagaaaacacgAGTAGAGCTTAATATCTCAGAGAACTGCCTTAAACTTATTGAAGTTCTGGATACAATGGACAAATGGATTGAAGAGATCCCACCAGTTGAACAGCCCCAGAGATTTGGGAATAAAGCATTTAGGGATTGGTTTGATAAGATGGAAGAGAACTCTGAGGCTTTTGTTAAGTCTTTGTTATCTGAGGAATACCAAGGAGCCACAGTAGAACTTAGGGCTTATTTCAAAGATAGTTTTGGTAACAGAGTGAGAATTGACTATGGAACAGGCCACGAGGCATCTTTTGTTTGCTTCTTGTGCTGTTTGTTCAAGCTCCGTATATTACAAGATTCAGAAAAAGATGCTATAGTATTAAGGATATTTAACAGATATTTAAGCATGATGCGCAAGCTACAGAATACATACAGAATGGAGCCTGCAGGAAGTCAGGGCGTCTGGGGCTTAGATGACTTTCAGTTTCTGCCATTCATATGGGGCAGTGCCCAACTCATAGGTCATCGACAAATGTCCCCTAAAGCATTTTTGGATTCTTCAATTGTTGACTCATTTTACAAGGACTACATGTTCCTGGATTGCGTCCGGTTTATAAACACTATGAAAAGTGGTCCGTTTCATGAACACTCCAATATCTTGTGGAACATTAGCGGGGTGCCAAACTGGGGCAAGGTCAACTCTGGTCTCGTCAAGATGTACAAGGCGGAGGCAGCACAacacaatgatgatgattacaaGGATAAGGATGAGAGAGCCAACACCTGCCAGAACCAATATGTACCAGGTCTCCAAGGTCATAACGAACAGAGAGCGGCCTGGTACGATAGACTAGACCTAGAATAAAAACAGACACAGAGGCTGTAGAAAAAAACCTTCGTAGACGGAATCAGGGAAATGGTTCAACACAAGATGGAAGTCGTATGCTCTGCTCTTCTGTGatcacaggtatcccaatgctactgtcagtggtttataaaggaatgtatgggggaatttatatgttagaaaaaaaaactatcgagaAAAGATAAAACTATAAACCTTGTAATAGTTTGATTGAGTCTTCTTATATTTCAATTTTGCCGATAGAATCTCAGAGTTTGAAGATACACGAATTGGGTATTTTGCAGTATATAAGCCAGTAACCTTGGGCAGCCCGTGGCCGCAATCATTTCGTCCGTAGATTTCAAACTTCGTCCGTATACGGACGAAGCGATCTTATTGGCTAATGACCTTCCATCATTCATCGCTACATAGCTGTCACGTTCGCGTTTTCAGTGCTAGTTCAACATGGCGACTCATAAAAGCCCTCAATTCAAAAAGCTCTTTATATATAGATTTATGCACTGCCTATAAGCGGAGCCAGCTTTATTACCCTATTTTCATATTGGGAATCTTTGGGCAGTTTAGGGGTATGAACCCTGAAGTATAGAGTTTCTCTAGACTAGAATTTATTTTGAGGATAAAAAAGAGAtctataataacaacattcaCCTCAGTCAGCttaatcccccctcccccattttttcatttatgtAACCTTGTTTGAAATGCATGGTCCAAGctggattttattttatctcagCTATTTCTCCCACCGTAATGAAATGCTGGACCTCCTCCCAATCACCACTTCTTTTGCAAcctaacaaaaaatattgctgatattttatttttatttattaacagTGCTCTGTGTAACTTCATTTGATAGACGACTGATACTGAACAGATATTTCCTATTTTACATGTGCCTTTCCATGTACAGCATTActcagttttttttgttaagtACAGCTTTGAAGATCAAAATACTTCAGCAGATGTTTGCAGCAAGAGAGCCCAACATTTTGCACCCAAAAATACCTATGTAAAATTTTCAgccatttttaaaacacagtacaggtacaggtaccAAATTGCTTGAAGATGCAACTACAAATCTTTGTGAATGCAAATATTTCAAGTCACTATCCTTTTCCTACTTCTGCTAACAGCACAGTTATATCATTCTTAAATGTTAACCTCCCAGTTAAAAGCCAAGACAAAGTTAGCATAGAGAAGAAAAGAGAAATCCCATTTGACAGCATCCATTAAGGAGGGGGAGGGCTCCTCCTAAAATAGTCAGATGGGGTTGTTTGTCCTATCTACTGCTTTtccttagggagtgttcaaaCTGCTTAGAGAATGAAATTGCTTGACCGCACCTAATGTGCTACCTTAAGGGGGTAGGAATTAGGAACACCCAAAGTGTTATCCCTTAGAGTCGAGATCAATCATCCCCTTCAGTTTTGATGGGAGTCTCTTTGGGTAAATGGGTATGGTAAACAGCAATTTTACCTAATAGCAGATATGGCGAAGACGCAGAAATGTAAGTTCTGAATAAACTTGAATGTATCTATTTTATAATATCTTAAATGCACAAAGGATGCTGAATAGCGAATCAAATTATTGCTACTCATAAGTAGCTTGAATCCcacaaaa

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q28717	Serine/threonine-protein phosphatase 2A activator OS=Oryctolagus cuniculus OX=9986 GN=PTPA PE=1 SV=1
Q2KJ44	Serine/threonine-protein phosphatase 2A activator OS=Bos taurus OX=9913 GN=PTPA PE=2 SV=1
P58389	Serine/threonine-protein phosphatase 2A activator OS=Mus musculus OX=10090 GN=Ptpa PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005362 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03095 all species →	PTPA	Phosphotyrosyl phosphate activator (PTPA) protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037218 all species →	Homologous_superfamily	PTPA superfamily	Interproscan
IPR004327 all species →	Family	Phosphotyrosyl phosphatase activator, PTPA	Interproscan
IPR043170 all species →	Homologous_superfamily	Phosphotyrosyl phosphatase activator, C-terminal lid domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10012 all species →	SERINE/THREONINE-PROTEIN PHOSPHATASE 2A REGULATORY SUBUNIT B	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0019211 all species →	Molecular Function	phosphatase activator activity	Interproscan
GO:0000159 all species →	Cellular Component	protein phosphatase type 2A complex	Interproscan
GO:0003755 all species →	Molecular Function	peptidyl-prolyl cis-trans isomerase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0007052 all species →	Biological Process	mitotic spindle organization	Interproscan
GO:0008160 all species →	Molecular Function	protein tyrosine phosphatase activator 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
K17605	PPP2R4, PTPA; serine/threonine-protein phosphatase 2A activator	-	Protein phosphatases and associated proteins	ko01009	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_001622976.2 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

40TPM > 0

16Conditions

10.5Max TPM

4.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	6.35	8.00
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	4.11	5.03
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	2.76	2.90
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	2.84	3.50
whole 6 week old aboral regenerate · regenerate uncut	3	3	3.14	3.22
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	3.54	7.71
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	3.21	5.17
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	7.36	10.46
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	3.78	5.67
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	5.22	7.61
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	3.73	4.95
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	4.35	7.35
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	6.45	7.38
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	5.68	9.53
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	2.73	4.40
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	1.53	4.60

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	8.00
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	5.90
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	5.14
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	5.03
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	3.71
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	3.58
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	2.90
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	2.79
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	2.59
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	3.50
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	2.53
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	2.50
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.22
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.15
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.06
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	7.71
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	2.92
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	5.17
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	4.47
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	10.46
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	6.42
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	5.19
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	5.67
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	5.66
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	7.61
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	4.54
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	3.52
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	4.95
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.16
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.09
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	7.35
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	5.69
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	7.38
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	6.19
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	5.80
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	9.53
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	7.50
SRR6320868	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	4.40
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	3.79
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	4.60
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.