Detailed information of c0490.g007.t2.p1 in Palythoa mizigama

Genomic Location: not available for this species
NR annotation: CAH3156089.1, unnamed protein product [Porites lobata]
Species Palythoa mizigama · all data for this species · gene families

 Sequence
No sequence record for c0490.g007.t2.p1 in PMIZI (the gene ID may belong to a different isoform naming scheme). Try the gene search.
 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
Q9VW71Fat-like cadherin-related tumor suppressor homolog OS=Drosophila melanogaster OX=7227 GN=kug PE=2 SV=3
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0001626 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF12947
all species →
EGF_3EGF domainDomainInterproscan
PF03153
all species →
TFIIATranscription factor IIA, alpha/beta subunitFamilyInterproscan
PF19028
all species →
TSP1_spondinSpondin-like TSP1 domainDomainInterproscan
PF17803
all species →
Cadherin_4Bacterial cadherin-like domainDomainInterproscan
PF00090
all species →
TSP_1Thrombospondin type 1 domainDomainInterproscan
PF00028
all species →
CadherinCadherin domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR024731
all species →
DomainEGF domainInterproscan
IPR036383
all species →
Homologous_superfamilyThrombospondin type-1 (TSP1) repeat superfamilyInterproscan
IPR000742
all species →
DomainEGF-like domainInterproscan
IPR002126
all species →
DomainCadherin-likeInterproscan
IPR015919
all species →
Homologous_superfamilyCadherin-like superfamilyInterproscan
IPR000884
all species →
RepeatThrombospondin type-1 (TSP1) repeatInterproscan
IPR018097
all species →
Conserved_siteEGF-like calcium-binding, conserved siteInterproscan
IPR050174
all species →
FamilyProtocadherin/Cadherin-related Cell AdhesionInterproscan
IPR000152
all species →
PTMEGF-type aspartate/asparagine hydroxylation siteInterproscan
IPR004855
all species →
FamilyTranscription factor IIA, alpha/beta subunitInterproscan
IPR006626
all species →
RepeatParallel beta-helix repeatInterproscan
IPR001881
all species →
DomainEGF-like calcium-binding domainInterproscan
IPR009088
all species →
Homologous_superfamilyTranscription factor IIA, beta-barrelInterproscan
IPR000436
all species →
DomainSushi/SCR/CCP domainInterproscan
IPR044004
all species →
DomainSpondin-like TSP1 domainInterproscan
IPR040853
all species →
DomainRapA2, cadherin-like domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR24028
all species →
CADHERIN-87AInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005509
all species →
Molecular Functioncalcium ion bindingInterproscan
GO:0007156
all species →
Biological Processhomophilic cell adhesion via plasma membrane adhesion moleculesInterproscan
GO:0016020
all species →
Cellular ComponentmembraneInterproscan
GO:0005887
all species →
Cellular Componentplasma membraneInterproscan
GO:0007155
all species →
Biological Processcell adhesionInterproscan
GO:0005672
all species →
Cellular Componenttranscription factor TFIIA complexInterproscan
GO:0006367
all species →
Biological Processtranscription initiation at RNA polymerase II promoterInterproscan

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
K16669FAT4; protocadherin Fat 4-Cell adhesion moleculesko04515deepkoala

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 Palythoa mizigama 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 Palythoa mizigama, 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.not in the sequence tableopen →
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.not in the sequence tableopen →
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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