Detailed information of alvinactis_v1_g17631 in Alvinactis idsseensis sp. Nov.

Genomic Location: chr_8:26076058...26123436
NR annotation: XP_028518080.1, uncharacterized protein LOC110249342 [Exaiptasia diaphana]
Species Alvinactis idsseensis sp. Nov. · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
O75096Low-density lipoprotein receptor-related protein 4 OS=Homo sapiens OX=9606 GN=LRP4 PE=1 SV=4
Q9QYP1Low-density lipoprotein receptor-related protein 4 OS=Rattus norvegicus OX=10116 GN=Lrp4 PE=1 SV=2
O75581Low-density lipoprotein receptor-related protein 6 OS=Homo sapiens OX=9606 GN=LRP6 PE=1 SV=2
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0000657 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF14670
all species →
FXa_inhibitionCoagulation Factor Xa inhibitory siteDomainInterproscan
PF07699
all species →
Ephrin_rec_likeTyrosine-protein kinase ephrin type A/B receptor-like DomainInterproscan
PF00084
all species →
SushiSushi repeat (SCR repeat)DomainInterproscan
PF02494
all species →
HYRHYR domainDomainInterproscan
PF00058
all species →
Ldl_recept_bLow-density lipoprotein receptor repeat class BRepeatInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR000436
all species →
DomainSushi/SCR/CCP domainInterproscan
IPR000033
all species →
RepeatLDLR class B repeatInterproscan
IPR011641
all species →
DomainTyrosine-protein kinase ephrin type A/B receptor-likeInterproscan
IPR003410
all species →
DomainHYR domainInterproscan
IPR035976
all species →
Homologous_superfamilySushi/SCR/CCP superfamilyInterproscan
IPR011042
all species →
Homologous_superfamilySix-bladed beta-propeller, TolB-likeInterproscan
IPR000742
all species →
DomainEGF-like domainInterproscan
IPR009030
all species →
Homologous_superfamilyGrowth factor receptor cysteine-rich domain superfamilyInterproscan
IPR050778
all species →
FamilyCueball/EGF/LRP/NidogenInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR46513
all species →
VITELLOGENIN RECEPTOR-LIKE PROTEIN-RELATED-RELATEDInterproscan

 Gene Ontology
No Gene Ontology signature was recorded for alvinactis_v1_g17631 in Alvinactis idsseensis sp. Nov..
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 alvinactis_v1_g17631.

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 Alvinactis idsseensis sp. Nov. 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 Alvinactis idsseensis sp. Nov., 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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