Detailed information of BRAKERYMEP00000003713.1 in Astreopora myriophthalma

Genomic Location: BLFK01000104.1:907038...1077426
NR annotation: CAH3172147.1, unnamed protein product [Porites lobata]
Species Astreopora myriophthalma · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
B3EWZ6MAM and LDL-receptor class A domain-containing protein 2 (Fragment) OS=Acropora millepora OX=45264 PE=1 SV=1
B3EWZ5MAM and LDL-receptor class A domain-containing protein 1 (Fragment) OS=Acropora millepora OX=45264 PE=1 SV=1
Q5VYJ5MAM and LDL-receptor class A domain-containing protein 1 OS=Homo sapiens OX=9606 GN=MALRD1 PE=1 SV=4
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0000343 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00629
all species →
MAMMAM domain, meprin/A5/muDomainInterproscan
PF00057
all species →
Ldl_recept_aLow-density lipoprotein receptor domain class ARepeatInterproscan
PF00040
all species →
fn2Fibronectin type II domainDomainInterproscan
PF00088
all species →
TrefoilTrefoil (P-type) domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR000998
all species →
DomainMAM domainInterproscan
IPR002172
all species →
RepeatLow-density lipoprotein (LDL) receptor class A repeatInterproscan
IPR044913
all species →
Homologous_superfamilyP-type trefoil domain superfamilyInterproscan
IPR013320
all species →
Homologous_superfamilyConcanavalin A-like lectin/glucanase domain superfamilyInterproscan
IPR036055
all species →
Homologous_superfamilyLDL receptor-like superfamilyInterproscan
IPR023415
all species →
Conserved_siteLow-density lipoprotein (LDL) receptor class A, conserved siteInterproscan
IPR017994
all species →
FamilyP-type trefoil, chordataInterproscan
IPR000742
all species →
DomainEGF-like domainInterproscan
IPR036943
all species →
Homologous_superfamilyFibronectin type II domain superfamilyInterproscan
IPR000562
all species →
DomainFibronectin type II domainInterproscan
IPR035992
all species →
Homologous_superfamilyRicin B-like lectinsInterproscan
IPR000772
all species →
DomainRicin B, lectin domainInterproscan
IPR013806
all species →
Homologous_superfamilyKringle-like foldInterproscan
IPR000519
all species →
DomainP-type trefoil domainInterproscan
IPR017957
all species →
Conserved_siteP-type trefoil, conserved siteInterproscan
IPR051560
all species →
FamilyMAM domain-containing proteinInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR23282
all species →
APICAL ENDOSOMAL GLYCOPROTEIN PRECURSOR.Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0016020
all species →
Cellular ComponentmembraneInterproscan
GO:0005515
all species →
Molecular Functionprotein 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 BRAKERYMEP00000003713.1.

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 Astreopora myriophthalma 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 Astreopora myriophthalma, 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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