Detailed information of ANN40652-RA in Montipora grisea

Genomic Location: Scaffold_8996__1_contigs__length_20972:10483...14699
NR annotation: MXZ24129.1, glycine--tRNA ligase subunit beta [Caldilineaceae bacterium SB0665_bin_21]
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
Q8L785Glycine--tRNA ligase, chloroplastic/mitochondrial 2 OS=Arabidopsis thaliana OX=3702 GN=EDD1 PE=1 SV=1
B0B923Glycine--tRNA ligase OS=Chlamydia trachomatis serovar L2 (strain ATCC VR-902B / DSM 19102 / 434/Bu) OX=471472 GN=glyQS PE=3 SV=1
P0CE22Glycine--tRNA ligase OS=Chlamydia trachomatis serovar D (strain ATCC VR-885 / DSM 19411 / UW-3/Cx) OX=272561 GN=glyQS PE=3 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0014384 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF02163
all species →
Peptidase_M50Peptidase family M50FamilyInterproscan
PF02091
all species →
tRNA-synt_2eGlycyl-tRNA synthetase alpha subunitDomainInterproscan
PF02092
all species →
tRNA_synt_2fGlycyl-tRNA synthetase beta subunitFamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR008915
all species →
DomainPeptidase M50Interproscan
IPR002310
all species →
FamilyGlycine-tRNA ligase, alpha subunitInterproscan
IPR045864
all species →
Homologous_superfamilyClass II Aminoacyl-tRNA synthetase/Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL)Interproscan
IPR015944
all species →
FamilyGlycine-tRNA ligase, beta subunitInterproscan
IPR006194
all species →
FamilyGlycine-tRNA synthetase, heterodimericInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR30075
all species →
GLYCYL-TRNA SYNTHETASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0006508
all species →
Biological ProcessproteolysisInterproscan
GO:0000166
all species →
Molecular Functionnucleotide bindingInterproscan
GO:0004820
all species →
Molecular Functionglycine-tRNA ligase activityInterproscan
GO:0005524
all species →
Molecular FunctionATP bindingInterproscan
GO:0005737
all species →
Cellular ComponentcytoplasmInterproscan
GO:0006426
all species →
Biological Processglycyl-tRNA aminoacylationInterproscan
GO:0005829
all species →
Cellular ComponentcytosolInterproscan

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 ANN40652-RA.

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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