Detailed information of ANN33675-RA in Montipora grisea

Genomic Location: Scaffold_3953__1_contigs__length_33904:32069...33904
NR annotation: WP_223117853.1, DNA primase [Ruegeria sp. SCSIO 43209]
Species Montipora grisea · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
P0A118DNA primase OS=Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440) OX=160488 GN=dnaG PE=3 SV=1
P0A119DNA primase OS=Pseudomonas putida OX=303 GN=dnaG PE=3 SV=1
P0ABS6DNA primase OS=Escherichia coli O157:H7 OX=83334 GN=dnaG PE=3 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0014675 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF01807
all species →
zf-CHC2CHC2 zinc fingerDomainInterproscan
PF08275
all species →
DNAG_NDNA primase catalytic core, N-terminal domainDomainInterproscan
PF13155
all species →
Toprim_2Toprim-likeFamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR030846
all species →
FamilyDNA primase DnaG, bacteriaInterproscan
IPR002694
all species →
DomainZinc finger, CHC2-typeInterproscan
IPR050219
all species →
FamilyDnaG PrimaseInterproscan
IPR006171
all species →
DomainTOPRIM domainInterproscan
IPR037068
all species →
Homologous_superfamilyDNA primase, catalytic core, N-terminal domain superfamilyInterproscan
IPR036977
all species →
Homologous_superfamilyDNA Primase, CHC2-type zinc fingerInterproscan
IPR013264
all species →
DomainDNA primase DNAG, catalytic core, N-terminalInterproscan
IPR006295
all species →
DomainDNA primase, DnaGInterproscan
IPR034151
all species →
DomainBacterial DnaG primase, TOPRIM domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR30313
all species →
DNA PRIMASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003896
all species →
Molecular FunctionDNA primase activityInterproscan
GO:0006269
all species →
Biological ProcessDNA replication, synthesis of primerInterproscan
GO:0008270
all species →
Molecular Functionzinc ion bindingInterproscan
GO:0003677
all species →
Molecular FunctionDNA bindingInterproscan
GO:0006260
all species →
Biological ProcessDNA replicationInterproscan
GO:0005737
all species →
Cellular ComponentcytoplasmInterproscan

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
KOEnzymeEnzyme IDPathwayMap IDSource
K02316dnaG; DNA primaseEC:2.7.7.101
DNA replication proteinsko03032deepkoala

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 Montipora grisea 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 Montipora grisea, 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.

AnalysisWhat it doesStatus
Primer designDesign PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.template foundopen →
BLASTSearch 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 foundopen →
Expression heatmapDraw 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 / orthogroupLook 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 analysisStart a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.open →
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