Gene detail

Detailed information of HOLI01031.G12962 in Hydra oligactis

Genomic Location: HOLI01031:169623...172105
NR annotation: WP_105262539.1, GGDEF domain-containing protein [Rhodoferax sp. TS-BS-61-7]
Species Hydra oligactis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

HOLI01031.g12962.t1

ATGAACGCGCTTGTGCAAAGTCTGGCGGCCATGAGTGGTCTGCGTGACCGCGACGCTCTGGATGCCGCGCTGGTGCGTTTGGTGATCAGCAGCAGCGACGGTGCGGTGCACAGTGCCAGCCTGATCCGTGTGGTGGGTGAGGGCGATGACCGGCGCTGCCTGGTGCAGGCCCGGCTGGATGCAGGCCAAACCCAGATCAGCCGCGACTTGCTCTGGACCGACTGGACTACCTTGCCCCATCTCTCCCGCTTTGCGTTGCGCCAGCAGGCCGTAGAGCAGGGGCGCGCAGTACATGCCGACACTCCCCCCGGCGCGTGCGTGATTCCGCTGCAGACGCCGCAGGGCACCTGGGGCCTGCTCGAAATGGGCTTTGCCACAGACCTGTCCGCACACACGCTGGAGCTGGTGGACGGCATTTTGCTGACCTACCACAACCTGCTGGGCCTGCTGGACTACGGCGAAAAAGACGCGTTGACCGAACTGCTGAACCGCAAAACCTTTGACGGTGCCTTTTTCAAAGCCACCGCCGAACAGCATGGCGACGACCTGCCCGAGGGCGGTGAGCGCCGCCAGCCGCATCCCGATGCGGGCGTGTGGCTGGCCGTGCTGGACATTGACCATTTCAAGCGCGTGAACGACACCTATGGCCACCTGATTGGTGACGAGGTGCTGTTGCTGCTGGCACGCCTGATGCGCAGCTGCTTCCGTTTCCACGACCAGCTGTACCGTTTTGGGGGCGAGGAGTTTGTGGTGTTGATGCGCTGCGACAGCGTGGACCATGCCCATGCGGCACTGGAGCGTCTGCGCGAGCGGGTACAGGCCTATGCCTTTCCGCAGGTCGGCACTATCACCGTGAGCATCGGCTTCTCGGTGCTGCTGCCACACGACACGCCCAGCGGTGCCTTTGGCCGCGCCGACAAGGCGGTCTACCACGCCAAGGAACATGGCCGCAACCAAGTCTGCAGCTACCAGGCGCTGGTGGCCTCGGGCGACCTGGTGGACCAGGTGGCCGAGGGCATGGACGTGGACCTGCTAGGGGGTACACCCAGCCACCAGGAGTTGCCCGTGAGTGCCAGCGAAGACGAATTGATCCGCCGTATCCAGAACGACATGCTCGACAGCTATGACGAAGAGCTGGAGATGGAGCTGGACGACCAGCACCTGGAGCGCCTGGCCGGCGGCCAGGTCCCCGACGCCGATGCACGTGCCGCACGCCGCCAGTACTTCAAGGAGCTGTTCCGCATGCAGGGCGAGCTCGTCAAGCTGCAGGACTGGGTGGTGGCCACAGGCCACAAGGTGGTGGTGATTTTTGAAGGGCGCGACGCAGCAGGCAAAGGCGGCGCCATCAAGCGCATCACCCAGCGCCTGAACCCGCGTGTTTGCCGCGTGGCCGCATTGCCAGCACCCAACGACCGCGAGCGCACGCAGTGGTACTTCCAGCGTTATGTGAGCCACCTGCCGGCGGCCGGAGAGATCGTGCTGTTCGACCGCAGCTGGTACAACCGCGCCGGTGTGGAGCGCGTCATGGGCTTTTGCAATGACGAGCAGCTCGAAGAGTTTTTCCGCACCGTGCCCGAGTTCGAGAAGATGCTGGTGCGCTCCGGCATCCAGGTCATCAAGTACTGGTTCTCCATCTCCGACGAAGAGCAGCACAGCCGCTTTCTGGGCCGCATCCACGACCCTCTGAAGCAATGGAAGCTCAGCCCCATGGACCTTGAGTCACGCAGCCGCTGGGAAGACTACACCCGCGCCAAAGAGGTGATGCTGGAGCGCACTCACATCGCCGAGGCGCCGTGGTGGAGTGGTGCAGGCGGTGGACAAAGAAGAAGGCCCGCCTCAATTGCATCCACCACCTGTTGCAGCAGATGCCGTATGAGGAAACCGAGCACCCGCCGGTGGTGTTGCCGCCGCGGGTGCGGCATGAGGACTATGAGCGTCGGCCCGTGCCTTTGGACATTATGGTTCCTGAGCCCCTCGCCCCGTCGGCGAGGGGGAGCTTTTAACAGCCATATTGGGTTTTTGTGCGCCGGATGCATGGCTACTGGGGTGAGGTTGCCACCGTTACTTTGCTCCACGGCCAACGCTTGCGGTTGTGGCGACCTCGGAGATGTTGGTATGCCAACACTGGCGGCTGCGCACGCCAGTGGCTCCGCGCCTGCACGTTTGCATTCACCACAACCGTTGGTGCTGGCCGTGGAGTACCCGTCCGTTTGCAACGTTTCTGCTGTAGCACCTTGGCCGGAGCGAAGCCCCCAAATCGGCTGTTCAAGGGCTCCCCTCGCCGACGGGGCGAGGGGCTGGGGGAGTGGGTGTTAA

Transcript

HOLI01031.g12962.t1

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9I154	ADP-polyphosphate phosphotransferase OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=PA2428 PE=1 SV=1
Q930V2	ADP-polyphosphate phosphotransferase 2 OS=Rhizobium meliloti (strain 1021) OX=266834 GN=RA0092 PE=1 SV=1
Q5LX16	NDP-polyphosphate phosphotransferase 1 OS=Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3) OX=246200 GN=SPO0224 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0014806 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00990 all species →	GGDEF	Diguanylate cyclase, GGDEF domain	Domain	Interproscan
PF03976 all species →	PPK2	Polyphosphate kinase 2 (PPK2)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029787 all species →	Homologous_superfamily	Nucleotide cyclase	Interproscan
IPR000160 all species →	Domain	GGDEF domain	Interproscan
IPR022488 all species →	Domain	Polyphosphate kinase-2-related	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR043128 all species →	Homologous_superfamily	Reverse transcriptase/Diguanylate cyclase domain	Interproscan
IPR022486 all species →	Family	Polyphosphate kinase 2, PA0141	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR34383 all species →	POLYPHOSPHATE:AMP PHOSPHOTRANSFERASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006793 all species →	Biological Process	phosphorus metabolic process	Interproscan
GO:0008976 all species →	Molecular Function	polyphosphate kinase 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

No KEGG orthology assignment for HOLI01031.G12962.

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 Hydra oligactis 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 Hydra oligactis, 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 →