Gene detail

Detailed information of BRAKERKREP00000015261.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047146483.1, tyrosine-protein phosphatase non-receptor type 22 isoform X2 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000015261

atgattGATTCTCATATTGATGGCCTAAAAGCATTTCTGGGAAGATACACAGATTTTATTGAACAGcgcaaattaaataaagacCCTGCTGGAAATGAGTTTCAGCTCATTAAGCAACAAGCTATTGAAGACAGGCAGCAGATTCAAGCAATTGAGGGAGCAAAAGaagttaataaacaaaaaaaccgaTATAAGGATATTTTAccatatgACTATTCAAGAGTTGTTCTACCAAAAGAGGATTCCATAGAAGGCTCAGACTATattaatgcaaattttatCAAGGATGGAAATGGCAATACTTCTTATATTGCTGCACAAGCTCCGATGGCTTCTACAGTTGATGATTTTTGGAGAATGATTTGGACATATGATGTTAAAttGGTGATAATGGCATGTAAAGAAGTAGAGCTTGGCAAACCTCGTTGTCATAGGTATTGGCCAGATGAAGGGCAAGAGTGTTGGTTTAAAGatatcaaagttattttaAATGGATCAAGGGATTTTACAAAGACTCTGACGCTAAGGGATTTAAAGCTGCTAAGAAATGGAaaagAGAAGTATGTTACTCAAATGCATTATACTGATTGGCCTGATCACGGTGCACCAGAAACCACTGAGCCAATTATTCAGTTGATAAACTTAGCTCGCAAAAAGCACCCTGATGATATTCCACCTATTGTTATCCATTGCAGTGCAGGGTGTGGAAGAACTGGAGCTATCATTGCAATTGATTATGCTAGAAAGCTATTGCAATTAAAGaaagcTTCTGAAATTGATGTTTTGAGTATTGTGATGGACCTACGTAGACAAAGACCATCGATGGTACAAGCAAAAgagCAATTAGAATTTCTTTATGATGTTATTCGTGATATGGTATCAACAGAGCTAAGTAAATACACTGTACCAAATGATCTTGAGAACTCAAATTATGTCAATATTGGTTTTGTGCATAAGGACACATTTGGTTCAAGGCAgagtttgttaaataaatctCCTTCTTTGTACAAAAAACAATGCAAGCAAGACTCACCTTTTCAGCGTAGTAAAAGCTTATACAATACAGAGTCACCAATTATCAATTCTGATAAAaAAAATGCAAGATCTCAAGAAGATAGCGTTCAACaaccaaatataaaaaatcaagatatATTATTTGAGCAAATAAAGCGACAACACAATGCTgggcaaaaaaaagaaaagaaaccacAAGATGGATTACAGAAGTCAAATGAATCTAATCagcaaacaaaactttatcaaGTGAAGCCTCAAGATGTTAGTAATATTCAACCAACAACAAAAGATCCAAATTCTGaaacaaagttattaaaaacaactgcTGTCATACCGCCAAACACTCTGTTGAGTACAGCTGCTTTAAAGATGAAAGAAGCAGAGAAAAGTGGTGACATTTGCCAAATGTTGGAATCTTTAGACTCTAAAAATAGTTACGGTATTGTAAAAAGTTCTAAACATGTTTCTGAAAAATCAGAGAAACCGAGTTCAAGTAATCAGCCTCAGAAATTTAATATTCCTCcttcaaaagttgttttagaCAATAACAGTAATGGAAACATTGTGGCGTCTGATAACTATGCGCAGCTCATTCGATCAACACCTCCTCAGTTGCAAGCTGGTTTAATTATTCCTTATTCGATTgttgaaattggaaaaaataaagttgcacAATCTGACTCAATCTCATCAAGCTCGCGGAAATCTTCTGTAGAAGCTACACCTCCTCTTCCTGAAAGAACACCAGAATCATTTATCATTGTTACTCCTGAGAATGAAAAACAACCTGAATACTCCACTCTTGATGAGAATATCAATAATTCTTCAAATCCTGTAGCTACAGAGTCATCTGCTTCAGCATCTTGTCCTCCAACACCAAAGAATTGGTTCAGCGCGTTCTCTAAAATGAAGaatattaccaaaaaaagtGGAAAACCAACAGATACAAcatttttgtcatttgatAACTATGGCTTTAACGCACTTGgttATCCTAATCGGCTTAACATCAAACCAAAAGGACCGAAAACTAgagataaaaaggaaattaaaagaGTTCAAAATGACAAATGTGTTGTTCCATGCAAGAAGaagtcatcaaaaaaaaaaaggctctGTAGCCCTGACAAAAAGCTTGGTGGGTTGACAGAAGAAGAAgtgaaaaagttattgttacCAGACCATCTTGAAGAGaatttagatattatttttGTTGGTATTAATCCTGGGTTAGTATCTGCATATCGAGGTCATCATTATTGTGGAAATAACAACCatttttGGCCATTGTTGTTTGAAAGTGGATTGATAAGTGAGCCACTTACCTGGGAAAATGACTTTAGATGTTTACATTATGGAATAGGTATGACTAATATTGTCTCCAGGGCAACTAGAAGCGCAGCAGAGTTAACAagaTCAGAAATAAGAAGTGGAAAAGATTCTCTTATTGAGATGGTCAGCAAACTTAAGCCTCTGGTTGTGTGCTTCAATGGTAAAGGTATCTATGAAGTTTTTTCTGGGAAAAAGAAATGCGAAGTTGGTCAACAAGAGAATATTTTGAATTcgGCTGTATACGTGATGCCTTCAACTTCAGGTCTGGTCGCTAAATATCCTCGTAAAGaagataaacttatttttttccagCAGCTCAAAGGTTTGCGGGACAGGCTCAAGGAcgaaaaattatcaagaagCAATTAG

Transcript

BRAKERKRET00000015261

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9Y2R2	Tyrosine-protein phosphatase non-receptor type 22 OS=Homo sapiens OX=9606 GN=PTPN22 PE=1 SV=2
P35831	Tyrosine-protein phosphatase non-receptor type 12 OS=Mus musculus OX=10090 GN=Ptpn12 PE=1 SV=3
Q05209	Tyrosine-protein phosphatase non-receptor type 12 OS=Homo sapiens OX=9606 GN=PTPN12 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004327 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03167 all species →	UDG	Uracil DNA glycosylase superfamily	Domain	Interproscan
PF00102 all species →	Y_phosphatase	Protein-tyrosine phosphatase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000242 all species →	Domain	Tyrosine-specific protein phosphatase, PTPase domain	Interproscan
IPR036895 all species →	Homologous_superfamily	Uracil-DNA glycosylase-like domain superfamily	Interproscan
IPR016130 all species →	Active_site	Protein-tyrosine phosphatase, active site	Interproscan
IPR047170 all species →	Family	Tyrosine-protein phosphatase non-receptor type 12/18/22	Interproscan
IPR029021 all species →	Homologous_superfamily	Protein-tyrosine phosphatase-like	Interproscan
IPR000387 all species →	Domain	Tyrosine-specific protein phosphatases domain	Interproscan
IPR005122 all species →	Domain	Uracil-DNA glycosylase-like	Interproscan
IPR003595 all species →	Domain	Protein-tyrosine phosphatase, catalytic	Interproscan
IPR015637 all species →	Family	Uracil DNA glycosylase family 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45983 all species →	TYROSINE PHOSPHATSE N18, PUTATIVE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004725 all species →	Molecular Function	protein tyrosine phosphatase activity	Interproscan
GO:0006470 all species →	Biological Process	protein dephosphorylation	Interproscan
GO:0016311 all species →	Biological Process	dephosphorylation	Interproscan
GO:0004726 all species →	Molecular Function	non-membrane spanning protein tyrosine phosphatase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0035335 all species →	Biological Process	peptidyl-tyrosine dephosphorylation	Interproscan
GO:0000700 all species →	Molecular Function	mismatch base pair DNA N-glycosylase activity	Interproscan
GO:0006285 all species →	Biological Process	base-excision repair, AP site formation	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

No KEGG orthology assignment for BRAKERKREP00000015261.1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000015261.1 across 29 RNA-seq samples of Hydra viridissima. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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.

29Samples

0TPM > 0

7Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
whole body	18	0	0.00	0.00
Whole	6	0	0.00	0.00
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	0	0.00	0.00
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	0	0.00	0.00
symbioic hydra M9 strain · symbioic hydra rep1	1	0	0.00	0.00
symbioic hydra M9 strain · symbioic hydra rep2	1	0	0.00	0.00
unannotated	1	0	0.00	0.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134058	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134062	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134063	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902
ERR13389755	unannotated	not recorded	not recorded	not recorded	ERP162636

Source: CnidoSite RNA-seq expression matrices (HVIRI_TPM, StringTie quantification over 29 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.