Detailed information of scaffold19.g33.t1 in Morbakka virulenta

Genomic Location: scaffold19:965991...1068388
NR annotation: XP_027055961.1, cadherin-23-like [Pocillopora damicornis]
Species Morbakka virulenta · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q2PZL6Protocadherin Fat 4 OS=Mus musculus OX=10090 GN=Fat4 PE=1 SV=2
Q6V0I7Protocadherin Fat 4 OS=Homo sapiens OX=9606 GN=FAT4 PE=1 SV=2
Q24292Protein dachsous OS=Drosophila melanogaster OX=7227 GN=ds PE=1 SV=3
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0000196 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF13927
all species →
Ig_3Immunoglobulin domainDomainInterproscan
PF00028
all species →
CadherinCadherin domainDomainInterproscan
PF00008
all species →
EGFEGF-like domainDomainInterproscan
PF01085
all species →
HH_signalHedgehog amino-terminal signalling domainDomainInterproscan
PF00092
all species →
VWAvon Willebrand factor type A domainDomainInterproscan
PF07679
all species →
I-setImmunoglobulin I-set domainDomainInterproscan
PF07645
all species →
EGF_CACalcium-binding EGF domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR015919
all species →
Homologous_superfamilyCadherin-like superfamilyInterproscan
IPR000742
all species →
DomainEGF-like domainInterproscan
IPR020894
all species →
Conserved_siteCadherin conserved siteInterproscan
IPR002126
all species →
DomainCadherin-likeInterproscan
IPR003599
all species →
DomainImmunoglobulin subtypeInterproscan
IPR007110
all species →
DomainImmunoglobulin-like domainInterproscan
IPR036465
all species →
Homologous_superfamilyvon Willebrand factor A-like domain superfamilyInterproscan
IPR009045
all species →
Homologous_superfamilyHedgehog signalling/DD-peptidase zinc-binding domain superfamilyInterproscan
IPR001881
all species →
DomainEGF-like calcium-binding domainInterproscan
IPR013783
all species →
Homologous_superfamilyImmunoglobulin-like foldInterproscan
IPR000980
all species →
DomainSH2 domainInterproscan
IPR001657
all species →
FamilyHedgehog proteinInterproscan
IPR036179
all species →
Homologous_superfamilyImmunoglobulin-like domain superfamilyInterproscan
IPR003598
all species →
DomainImmunoglobulin subtype 2Interproscan
IPR000152
all species →
PTMEGF-type aspartate/asparagine hydroxylation siteInterproscan
IPR002035
all species →
Domainvon Willebrand factor, type AInterproscan
IPR018097
all species →
Conserved_siteEGF-like calcium-binding, conserved siteInterproscan
IPR000320
all species →
DomainHedgehog, N-terminal signalling domainInterproscan
IPR013098
all species →
DomainImmunoglobulin I-setInterproscan
IPR036860
all species →
Homologous_superfamilySH2 domain superfamilyInterproscan
IPR049883
all species →
DomainNOTCH1 EGF-like calcium-binding domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR24026
all species →
FAT ATYPICAL CADHERIN-RELATEDInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005509
all species →
Molecular Functioncalcium ion bindingInterproscan
GO:0016020
all species →
Cellular ComponentmembraneInterproscan
GO:0005886
all species →
Cellular Componentplasma membraneInterproscan
GO:0007155
all species →
Biological Processcell adhesionInterproscan
GO:0007156
all species →
Biological Processhomophilic cell adhesion via plasma membrane adhesion moleculesInterproscan
GO:0007267
all species →
Biological Processcell-cell signalingInterproscan
GO:0007275
all species →
Biological Processmulticellular organism developmentInterproscan

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 scaffold19.g33.t1.

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 Morbakka virulenta 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 Morbakka virulenta, 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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