Detailed information of ENSCIQP00000020071.1 in Millepora alcicornis

Genomic Location: chr7:96786281...96792606
NR annotation: XP_047130062.1, phenylalanine--tRNA ligase beta subunit isoform X3 [Hydra vulgaris]
Species Millepora alcicornis · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q9WUA2Phenylalanine--tRNA ligase beta subunit OS=Mus musculus OX=10090 GN=Farsb PE=1 SV=2
Q9NSD9Phenylalanine--tRNA ligase beta subunit OS=Homo sapiens OX=9606 GN=FARSB PE=1 SV=3
Q5R7F7Phenylalanine--tRNA ligase beta subunit OS=Pongo abelii OX=9601 GN=FARSB PE=2 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0003624 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF03484
all species →
B5tRNA synthetase B5 domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR045060
all species →
FamilyPhenylalanine-tRNA ligase, class IIc, beta subunitInterproscan
IPR005147
all species →
DomaintRNA synthetase, B5-domainInterproscan
IPR009061
all species →
Homologous_superfamilyPutative DNA-binding domain superfamilyInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR10947
all species →
PHENYLALANYL-TRNA SYNTHETASE BETA CHAIN AND LEUCINE-RICH REPEAT-CONTAINING PROTEIN 47Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0004826
all species →
Molecular Functionphenylalanine-tRNA ligase activityInterproscan
GO:0006432
all species →
Biological Processphenylalanyl-tRNA aminoacylationInterproscan
GO:0009328
all species →
Cellular Componentphenylalanine-tRNA ligase complexInterproscan
GO:0000287
all species →
Molecular Functionmagnesium ion bindingInterproscan
GO:0003723
all species →
Molecular FunctionRNA bindingInterproscan
GO:0005524
all species →
Molecular FunctionATP bindingInterproscan

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 ENSCIQP00000020071.1.

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 Millepora alcicornis 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 Millepora alcicornis, 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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