Detailed information of amic_s0125.g47.t2 in Acropora microphthalma

Genomic Location: sc0000125_pilon:776962...837326
NR annotation: XP_044184833.1, LOW QUALITY PROTEIN: polycystin-1-like [Acropora millepora]
Species Acropora microphthalma · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q7Z442Polycystin-1-like protein 2 OS=Homo sapiens OX=9606 GN=PKD1L2 PE=1 SV=5
Q9Z0T6Polycystin family receptor for egg jelly OS=Mus musculus OX=10090 GN=Pkdrej PE=2 SV=2
Q9NTG1Polycystin family receptor for egg jelly OS=Homo sapiens OX=9606 GN=PKDREJ PE=1 SV=2
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0000050 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF02010
all species →
REJREJ domainFamilyInterproscan
PF00801
all species →
PKDPKD domainDomainInterproscan
PF20519
all species →
Polycystin_domPolycystin domainDomainInterproscan
PF00754
all species →
F5_F8_type_CF5/8 type C domainDomainInterproscan
PF08016
all species →
PKD_channelPolycystin cation channelFamilyInterproscan
PF00051
all species →
KringleKringle domainDomainInterproscan
PF01825
all species →
GPSGPCR proteolysis site, GPS, motif MotifInterproscan
PF01477
all species →
PLATPLAT/LH2 domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR000203
all species →
Conserved_siteGPS motifInterproscan
IPR008979
all species →
Homologous_superfamilyGalactose-binding-like domain superfamilyInterproscan
IPR002859
all species →
DomainPKD/REJ-like domainInterproscan
IPR000601
all species →
DomainPKD domainInterproscan
IPR022409
all species →
DomainPKD/Chitinase domainInterproscan
IPR035986
all species →
Homologous_superfamilyPKD domain superfamilyInterproscan
IPR036392
all species →
Homologous_superfamilyPLAT/LH2 domain superfamilyInterproscan
IPR001024
all species →
DomainPLAT/LH2 domainInterproscan
IPR000421
all species →
DomainCoagulation factor 5/8 C-terminal domainInterproscan
IPR046791
all species →
DomainPolycystin domainInterproscan
IPR046338
all species →
Homologous_superfamilyGAIN domain superfamilyInterproscan
IPR013806
all species →
Homologous_superfamilyKringle-like foldInterproscan
IPR013122
all species →
DomainPolycystin cation channel, PKD1/PKD2Interproscan
IPR051223
all species →
FamilyPolycystinInterproscan
IPR000001
all species →
DomainKringleInterproscan
IPR018056
all species →
Conserved_siteKringle, conserved siteInterproscan
IPR003915
all species →
FamilyPolycystic kidney disease type 2 proteinInterproscan
IPR038178
all species →
Homologous_superfamilyKringle superfamilyInterproscan
IPR014010
all species →
DomainREJ domainInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR10877
all species →
POLYCYSTIN FAMILY MEMBERInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005515
all species →
Molecular Functionprotein bindingInterproscan
GO:0005262
all species →
Molecular Functioncalcium channel activityInterproscan
GO:0016020
all species →
Cellular ComponentmembraneInterproscan
GO:0050982
all species →
Biological Processdetection of mechanical stimulusInterproscan
GO:0005509
all species →
Molecular Functioncalcium ion 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 amic_s0125.g47.t2.

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 Acropora microphthalma 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 Acropora microphthalma, 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 →
TOP