Gene detail

Detailed information of gene05937.t1 in Actinoscyphia liui

Genomic Location: chr2:28688983...28707080
NR annotation: XP_020911765.1, serine/threonine-protein phosphatase with EF-hands 2 isoform X1 [Exaiptasia diaphana]
Species Actinoscyphia liui · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

gene05937.t1

ATGGGTTGTGGAACTTCTAATCCTAACAATTCTGAAAAATCGAATTCGGATCCAACGAATTCCAAAACAAAAATACACTCTGCTGTCTTGATCCAGAACTGGTTTCGTCGCTATCGAGCTAGGCTTGAAGCACGCCGAAGATGTACCTGGAAAATCTTCCAAAGCATCGAATATGCAGGGGAACAAGATCAGTTAAAGCTGTTGAACTTTTTTACTGATATGATGACTCATATTCCTGCCGATGGCAAAAACGCAGACGGCAAATCAAGTGTTATAACTGAGGCCTTGAATAGGAATAGGTCTACCAGTAGTAATTCCTCTGGAGAAAGCGATGACCTGGACAAACTGACTGATCCTTCATCCATCCAAGTGTCGCCGAATTACAATGGTGTCGAGGTTCGCCTTCCCATTACTGTACATACCGCGAACAAACTTATCAACAACTACAAGATAAATAAGCCACTGCATATAAAGTACGTTCTGGTGATCCTAAGAGAGGCTAGAGAAAGATTTAAACTTCTGCCAAACATCAGTAAAGCTACAACAAGTATTGCACGACAAATTACAATATGCGGAGACCTTCATGGTAAACTAAGCGATCTTTTCATCATATTTTCTAAGAACGGAGTCCCGTCAACAGAGAATCCATACGTGTTTAATGGTGATCTAGTCGACCGTGGCCCTCGATCGTTAGAAATCCTCCTTATTTTATTCACGTATTTCATCATTTACCCGAACAGTGTTTACATCAACCGAGGGAACCACGAGGATCATATCATGAACATGAGATATGGTTTTATCAAAGAAATTAGTGACAAATACAAAGAACAATCCAATAAAATCATCAAATTGCTGGAAGACATATTTGGTTGGTTGCCATTAGCAACGGTGGTTGATCAAAAGATTTTAGTCACTCACGGTGGAATATCTAATATTACAGACTTGAGGATTATTGAACAGATTGACCGACACAAGTATATATCGGTTCTCAAACCTTCGACTTTTAATGGCAAAGAAAGACCAAACCAGGCACAGCTTAGAGAATGGCGACAGTTACTAGATTTACTATGGAGTGACCCCAAACCAAACTACGGCTGTAAACCTAACAGTTTTCGTGGCGGTGGATGCTACTTTGGTCCTGACGTGACGAAAGAAGTCTTGGACAGACACAACTTTGATCTTTTAGTTCGTTCACACGAGTGTAAATATGAGGGCTACGAGTACACCCACAACGATAGGGTTGTCACAATCTTCTCGGCATCAAACTATTACGAACAAGGCAGTAATAGAGGAGCTTATATGAAGATAAAACCCAACGAGAAACCGTACTTTGTGCAGTATCAAGGGTCGAGCCAAGACAGCCATCTTACTATGAGAAGACGAGTGAGCATCGTAGAACAATCTGCTATACGGGAATTGAAGGAGAAACTTTACGCCAACAAACATGCACTGATGACTGCGTTTCAAGAAGTAGACGAGGAACATACTGGTTACCTACTACCCAGTCAGTGGGCAAGTGTCATAGAAGAGACCCTATCTCTTGAAGTACCGTGGAACATGGTCAAACATCAATTGGTGCGTGTTTCACCGGACGGACGTGTGGAATATGCATCTTGTTTGGAACAATATTCCATTGAAAGTAAAACAAAAAGGAATGGTCCTAGCATCACAGAAGCTTTGTACCGCAATAGATCCAACTTAGAGACGATTTTTAGAATGATGGATAAAGATAATTCAGGTCACGTGTCCATGGAGGAGTTTGAAGAGACGTGTAGAGTGCTAAACCAACATCGCAATGCAGAGATCTCAGAGAGTTCTATCAAAGATCTGGCCAAGAGCATCGATATGGACAAAGATGGCGTGATTAACTTTAATGAATTCCTAGAAGCATTTCGATTGGTTGATGTCTCCACGTCACGCAATGGCTTCGCGTATAGTACCGCTGACTCTCCTGTTTACCCACCGCCTGACAACAAGTCTAGTCCTGTTATTATGGAACACAAAATATGA

Transcript

gene05937.t1

TTTCAGTCGTCAACTTGGTTAGTGGTTTAGTAGATGACCTTAAATACGTGCTGAAGAACTGTAAGCCGATCACTCGGCAAGAGCGGTTTCTCGTAAGCAAGAGATGAATCTCTGGTTGGCGTTACAACTCAATTTGTAGACGTCTTGTCAGTGAATTGATCATATGTTAGTTGTGAGTGGCTTGTACAACTAGTGAAAGTTTTCAGCAACAAGCGAGCATATTAAACGTTTCCCAAACTTTGGCGGGAAAGAGGAATCATGTACGTGTTTCTACGTGAGCTTTGCGAGAGTTGCTGCTGAGAAAGTAAGGATCATTTGAGCGAGCTCAAGTACAAGACTTAAGATGGCAAGCAACGAGAATGGAATCAACGAACTGTAAGGATCGTGACGTAAACTTTGGTATTGGCAGCGTTCGATTATGGGTTGTGGAACTTCTAATCCTAACAATTCTGAAAAATCGAATTCGGATCCAACGAATTCCAAAACAAAAATACACTCTGCTGTCTTGATCCAGAACTGGTTTCGTCGCTATCGAGCTAGGCTTGAAGCACGCCGAAGATGTACCTGGAAAATCTTCCAAAGCATCGAATATGCAGGGGAACAAGATCAGTTAAAGCTGTTGAACTTTTTTACTGATATGATGACTCATATTCCTGCCGATGGCAAAAACGCAGACGGCAAATCAAGTGTTATAACTGAGGCCTTGAATAGGAATAGGTCTACCAGTAGTAATTCCTCTGGAGAAAGCGATGACCTGGACAAACTGACTGATCCTTCATCCATCCAAGTGTCGCCGAATTACAATGGTGTCGAGGTTCGCCTTCCCATTACTGTACATACCGCGAACAAACTTATCAACAACTACAAGATAAATAAGCCACTGCATATAAAGTACGTTCTGGTGATCCTAAGAGAGGCTAGAGAAAGATTTAAACTTCTGCCAAACATCAGTAAAGCTACAACAAGTATTGCACGACAAATTACAATATGCGGAGACCTTCATGGTAAACTAAGCGATCTTTTCATCATATTTTCTAAGAACGGAGTCCCGTCAACAGAGAATCCATACGTGTTTAATGGTGATCTAGTCGACCGTGGCCCTCGATCGTTAGAAATCCTCCTTATTTTATTCACGTATTTCATCATTTACCCGAACAGTGTTTACATCAACCGAGGGAACCACGAGGATCATATCATGAACATGAGATATGGTTTTATCAAAGAAATTAGTGACAAATACAAAGAACAATCCAATAAAATCATCAAATTGCTGGAAGACATATTTGGTTGGTTGCCATTAGCAACGGTGGTTGATCAAAAGATTTTAGTCACTCACGGTGGAATATCTAATATTACAGACTTGAGGATTATTGAACAGATTGACCGACACAAGTATATATCGGTTCTCAAACCTTCGACTTTTAATGGCAAAGAAAGACCAAACCAGGCACAGCTTAGAGAATGGCGACAGTTACTAGATTTACTATGGAGTGACCCCAAACCAAACTACGGCTGTAAACCTAACAGTTTTCGTGGCGGTGGATGCTACTTTGGTCCTGACGTGACGAAAGAAGTCTTGGACAGACACAACTTTGATCTTTTAGTTCGTTCACACGAGTGTAAATATGAGGGCTACGAGTACACCCACAACGATAGGGTTGTCACAATCTTCTCGGCATCAAACTATTACGAACAAGGCAGTAATAGAGGAGCTTATATGAAGATAAAACCCAACGAGAAACCGTACTTTGTGCAGTATCAAGGGTCGAGCCAAGACAGCCATCTTACTATGAGAAGACGAGTGAGCATCGTAGAACAATCTGCTATACGGGAATTGAAGGAGAAACTTTACGCCAACAAACATGCACTGATGACTGCGTTTCAAGAAGTAGACGAGGAACATACTGGTTACCTACTACCCAGTCAGTGGGCAAGTGTCATAGAAGAGACCCTATCTCTTGAAGTACCGTGGAACATGGTCAAACATCAATTGGTGCGTGTTTCACCGGACGGACGTGTGGAATATGCATCTTGTTTGGAACAATATTCCATTGAAAGTAAAACAAAAAGGAATGGTCCTAGCATCACAGAAGCTTTGTACCGCAATAGATCCAACTTAGAGACGATTTTTAGAATGATGGATAAAGATAATTCAGGTCACGTGTCCATGGAGGAGTTTGAAGAGACGTGTAGAGTGCTAAACCAACATCGCAATGCAGAGATCTCAGAGAGTTCTATCAAAGATCTGGCCAAGAGCATCGATATGGACAAAGATGGCGTGATTAACTTTAATGAATTCCTAGAAGCATTTCGATTGGTTGATGTCTCCACGTCACGCAATGGCTTCGCGTATAGTACCGCTGACTCTCCTGTTTACCCACCGCCTGACAACAAGTCTAGTCCTGTTATTATGGAACACAAAATATGACCCAAGCCTTAATTCTTCACAACGGTGATGGGCTTCCTGTGTCAAGATTGTCCACAGTTTTTCCTCTACTGCATATCCAGTCTTCCCTCTTCCTTCTGTTACCACAGGATAACCATTATAAAAGTAGTCTGTGAAGACGGATGTACCGACACGAGGATGATTTCCCGTCGACGATGACCAATGAAAAAATAATGTCAATGAATCAACAAGTTTCTGACTCTGAGGCATTTTCTTAAAAACTCTATACCTATAAATGGTCATCCTAGGGTAAAATTCCTTTCGACAAACACTGCGAATCAAAGCTTTTTATGATAAAACATAATATTACATTTATTATATGCGCATGCGTGACCTTCCTACATAGCAGCGAGGCTGTGACAGAGTTGTCATGGCAGCGAGACTGACGTAGAGTTGTCATGACTGTAAGGCAATTACGCAAGCTGTCACGACAGCAAGACTGTGACGTAGGCTTTCACGACAACGAGGCTGTGATGTAGACTTTCATGACAACGAGGGATGTGACGTAGAATTTCATGACAACGAGGCTGTGACGTAGAATTTCATGACAACGTGCCTGTGACGTAGGCTTTCATGACAACGAGGCTGTGACGTAGGCTTTCACGACAACGTGGCTGTGACGTAGGCTTTCATGACAACGAGGCTGTGACGTAACCTGTCATGACATCGAGGCTGTGATGTAGACGACTTAGTTTGTAAAATCAGCAGAAATATACCGACTGAAAACATTGCAATTAACTTATTGATTTTGTAGATCTTGTACATGTATCTATAAATACGTTTTCAAAGTTATTTGTAAATATGTTTTTCTTTACATAGATTTATAAAGACGTTTATATATCAATCGTTTAAAATACATTCATTTAATGAAATCTAAACATTGATAAAGATAATAGTAAAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
G5EBX9	Serine/threonine-protein phosphatase with EF-hands pef-1 OS=Caenorhabditis elegans OX=6239 GN=pef-1 PE=1 SV=1
O14830	Serine/threonine-protein phosphatase with EF-hands 2 OS=Homo sapiens OX=9606 GN=PPEF2 PE=1 SV=2
O35385	Serine/threonine-protein phosphatase with EF-hands 2 OS=Mus musculus OX=10090 GN=Ppef2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007015 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00149 all species →	Metallophos	Calcineurin-like phosphoesterase	Domain	Interproscan
PF13499 all species →	EF-hand_7	EF-hand domain pair	Domain	Interproscan
PF08321 all species →	PPP5	PPP5 TPR repeat region	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR002048 all species →	Domain	EF-hand 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
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR013235 all species →	Domain	PPP domain	Interproscan
IPR029052 all species →	Homologous_superfamily	Metallo-dependent phosphatase-like	Interproscan
IPR012008 all species →	Family	Serine/threonine-protein phosphatase with EF-hands	Interproscan
IPR051134 all species →	Family	Protein Phosphatase PPP	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45668 all species →	SERINE/THREONINE-PROTEIN PHOSPHATASE 5-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0016787 all species →	Molecular Function	hydrolase activity	Interproscan
GO:0004721 all species →	Molecular Function	phosphoprotein phosphatase activity	Interproscan
GO:0005506 all species →	Molecular Function	iron ion binding	Interproscan
GO:0030145 all species →	Molecular Function	manganese ion binding	Interproscan
GO:0050906 all species →	Biological Process	detection of stimulus involved in sensory perception	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
K13807	PPEF, PPP7C; serine/threonine-protein phosphatase with EF-hands	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.

Co-expression network

Genes whose expression across the transcriptome samples of Actinoscyphia liui tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Actinoscyphia liui, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →