Gene detail

Detailed information of XP_001628335.2 in Nematostella vectensis

Genomic Location: NC_064044.1:3929419...3943902
NR annotation: XP_001628335.2, serine/threonine-protein phosphatase 2B catalytic subunit beta isoform [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_001628285.3

TGGTTGTTGTTTATGTTGTTGGGAGCAGAGGAAGAAACGGCGAAGAGACGAAGGTTATAACAGGGAAATCCGTTTCCATCGAGGTCGATTGAAGATCGACGGCCTAGCTGTTGTTCGTATCGTTTTTTACCTAGCACAACAGCAATGGCGGCACAAGATGGCAAGCCTTTACCGACTTCGGACAGAATTCTCAAACATGTTCCAATGCCACCCGTTAACCGACTTACTATGGCCGATGTGTATGATTCAAATGGAAAACCGAGGGCAGATGTACTCAAGGCGCATTTTATTCTGGAAGGCCGCGTCGAAGACGAAGTTGCGCTAAAAATTATCAACGATGGAACAGCTATTTTACGGAAAGAAAAGACAATGTTGGAAGTGGATGCTCCTATTACAGTTTGTGGAGATATCCATGGGCAGTTTTATGATCTAGTCAAACTGTTTGAAGTTGGAGGCTCTCCAGCAACGACGAGATATCTTTTTCTCGGAGACTACGTAGATCGGGGATATTTTTCAATCGAGTGTGTGTTGTATTTGTGGACTCTAAAGTGTTTATATACGAACACACTATTTCTCCTTCGAGGAAACCACGAATGCCGACATCTTACAGAGTATTTCACCTTCAAGACGGAGTGTAAAATAAAGTATTCAGAAGCGGTGTATGATGCATGCATGGAATCCTTTGATTGTCTCCCACTTGCGGCCCTCATGAATCAACAATTCCTGTGTGTTCATGGAGGCCTGTCGCCAGAAATCCACACATTAGATGATGTGAAAAAGCTTGACCGGTTCAAAGAACCTCCGGCGTTTGGTCCAATGTGTGACCTCCTATGGTCTGACCCCTTGGAAGATTACGGTAACGAGAAAACCTCGGAGCACTTCagtcacaacacagttagagGGTGCTCCTATTTTTACAGTTATCCAGCAACATGTGAATTTTTACAGAACAACAATTTGCTGTCAATCATTAGAGCCCATGAGGCGCAAGATGCAGGGTATCGTATGTACAGAAAAAGTCAAGCCACAGGGTTCCCATCACTTATTACAATATTTTCTGCACCAAACTACTTAGATGTTTACAACAACAAAGCTGCCGTGCTTAAATATGAGAATAATGTCATGAACATAAGACAGTTTAACTGCTCGCCACATCCTTACTGGCTTCCAAACTTCATGGACGTATTTACTTGGAGTCTACCATTTGTAGGCGAGAAGGTTACAGAAATGCTTGTGAATATCCTCAGTATATGTACAGATGAAGAGCTGGAGGATGGCGATGAGGATGAGGAAAAGACTGAAGCACTCAAAAGGAAAGAGATTATCAGAAGCAAGATCAGAGCAATTGGCAAGATGGCACGCGTCTTTACAGTGTTGAGGGAGGAGAGTGAGAGTATCTTACAGCTCAAGGGTTTGACGCCTACTGGCCACCTCCCCGTTGGGCTGCTCTCCGGGGGCAAGCAGGAAGTGCAAGCTGCTCTCCAAGGCCATGACCCGACCCACAAGATATCTGGCTTTGAAGAGGCTAAAGGACTGGATAGAGTCAATGAGCGCATGCCACCCAGAAAGGACATGCCTCGACCGAAATAAAGGTGTCTGCGGCCACCAGTGATGCAGATAACCTGGGTACCATCCAAATGCTTTGAGGGCAGTGCGTATAAGAGCCATTCAAATCATGCAGTACTCTAGTCGGATCCTCTTTTACTATCAAATTGGACGCAGAAGCTAGGGTTTTATAGATATGTAGTTATTATTGTAAGTTATGGAGATGAAGCTGGTCTGTTGGGTGGTTCAGGCTTGCTGGTCGAGATGCTTATTATCCCGATAGGCATCTTATATAATTGCAGTGCAGTGCAGTGCTGCGCTAAGCTGGCGTTTGCACCAAGTGCGTCTGCTGTAGGAATATAATCTATTTATATATGGTGCATAATGCCAGGAAGTGGCCAGGAACAGTCTTCACTTGATCTCCTTGGTCACTTTCTGCTTGAAGCCTGCCACTGAAATTTTGAAGCGACTAGTCCTGGGGTCTTTCttttggtttatttttatgtagCTGTTACAAAATCTCTCAAATCACTGCAAAGTCTAGTATGCTCCAAACTGCGATAGCACTGCGGTAGCTATGGTTATTTATCCTTTGATTACTAACCCTGTCTAGCTATGGTCATTTATCTTATTGGATTACTAACACTGCAGTAGCTATGGTCATTTATCCTTTGATTGCAATCACTGACCTCACTACCTCTGTTAACCATGAAAGAACTATGTAAAGTACTATATAGTGCTTTATAACTGCTTTGTTCCATttcgtttatttttattatggcATCAATGAGAAAACAAATGGCGGAAAATTAATATTGCAAAGAGGTGGAATACAGACTTGTAGTCACTGTTCAAATATACGTTTTTCCAGTACTGTACAGTATATattatatacagtatataacTGTTATGTAGCCAATGTTTCTTTGGTGTACGCTTAACACGTAACttagtacccccccccccccccccttccttggTTAACTCCTGTTaggaagacaaaaaaaaaccatttTCTTCTACACCTATCTGCGCAGACCTGTATATTTGATTACCCTGTTACTATATTATTGAAGAATATACTAGGACCAGTTCATTGATTAAACCTAGGTACATTATTTTATCTGTATGTTAACATGAGGTAGATACTTTTGTCCTTTCAGTCGCAAGTGacccaaattttttttttccttttcatgaGAAAGTTCTATACAGCTAAAAGCTTGATCAgtttagagtggttttcaaaaacccgtgaaatactttttagtttactaatactaatactaatacactgtaatgtctttgttctcttttgttctggcttgactattacattttaacaactacattttgttgcacgggattttgaaagcCACCCTATATTGTGGGGTGACTATGATCAGGTGACGCTGATCACTTCTTGGATTGAAAGGGTTTAAAAGTTTAACTGCCTCTTCCAGACTTTATTACAGAACTCTTTGACTCTAAAAGATGGTTTATTTGTGCCGACTTTTCGGGTCGATTTGTGTGCGTGTTTAGAACTCCGCAAATGCTCTGGCCAAAAATAGCCCGAAAAATTGGTACATGTGAGTTACCTTTAATTTTTGTTCTGGTTCTTGTAGAATATCCCGTGATCTGTACTTCGCTCGCTAGTTGTCTGTAGCTAGGCGAATTtctgaagaaaacaaaaatgtaaattGATCAACATTTCATCTCATGAAGAAAGTTCGAATATTTATGAACCCTGTCCAAAAAATGTCAGAATTATTAATCTTAAATTTCTTTtggaatctattaaaatctaaTTAAACTGGTAAAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P48454	Serine/threonine-protein phosphatase 2B catalytic subunit gamma isoform OS=Homo sapiens OX=9606 GN=PPP3CC PE=1 SV=3
P16298	Serine/threonine-protein phosphatase 2B catalytic subunit beta isoform OS=Homo sapiens OX=9606 GN=PPP3CB PE=1 SV=2
Q27889	Serine/threonine-protein phosphatase 2B catalytic subunit 2 OS=Drosophila melanogaster OX=7227 GN=Pp2B-14D PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000472 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00149 all species →	Metallophos	Calcineurin-like phosphoesterase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR043360 all species →	Family	PP2B	Interproscan
IPR029052 all species →	Homologous_superfamily	Metallo-dependent phosphatase-like	Interproscan
IPR041751 all species →	Domain	PP2B, metallophosphatase domain	Interproscan
IPR004843 all species →	Domain	Calcineurin-like phosphoesterase domain, ApaH type	Interproscan
IPR006186 all species →	Domain	Serine/threonine-specific protein phosphatase/bis(5-nucleosyl)-tetraphosphatase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45673 all species →	SERINE/THREONINE-PROTEIN PHOSPHATASE 2B CATALYTIC SUBUNIT 1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005516 all species →	Molecular Function	calmodulin binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005955 all species →	Cellular Component	calcineurin complex	Interproscan
GO:0033192 all species →	Molecular Function	calmodulin-dependent protein phosphatase activity	Interproscan
GO:0097720 all species →	Biological Process	calcineurin-mediated signaling	Interproscan
GO:0016787 all species →	Molecular Function	hydrolase 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
K04348	PPP3C, CNA; serine/threonine-protein phosphatase 2B catalytic subunit	EC:3.1.3.16	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_001628335.2 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

48TPM > 0

16Conditions

80.9Max TPM

53.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	65.83	80.87
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	47.31	60.24
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	49.09	52.03
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	45.41	51.76
whole 6 week old aboral regenerate · regenerate uncut	3	3	41.26	43.63
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	49.31	55.61
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	61.07	74.80
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	56.63	63.13
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	51.77	56.85
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	54.94	63.59
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	49.47	52.58
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	62.79	67.77
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	53.36	57.06
whole 6 week old aboral regenerate · regenerate 48hpa	3	3	65.18	80.39
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	46.05	57.20
whole 6 week old aboral regenerate · regenerate 12hpa	3	3	55.60	67.39

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	80.87
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	61.92
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	54.69
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	60.24
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	41.06
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	40.64
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	52.03
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	51.98
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	43.27
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	51.76
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	45.07
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	39.40
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	43.63
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	42.98
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	37.16
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	55.61
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	48.35
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	43.98
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	74.80
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	57.43
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	50.97
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	63.13
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	59.20
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	47.54
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	56.85
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	51.43
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	47.03
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	63.59
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	53.10
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	48.12
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	52.58
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	48.69
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	47.13
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	67.77
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	64.41
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	56.19
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	57.06
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	55.67
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	47.35
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	80.39
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	64.35
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	50.80
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	57.20
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	45.61
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	35.35
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	67.39
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	53.46
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	45.96

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.