Detailed information of Ahemp_021007-T1 in Acropora hemprichii

Genomic Location: scaffold_852:13298...29014
NR annotation: XP_044177064.1, LOW QUALITY PROTEIN: uncharacterized protein LOC114971281 [Acropora millepora]
Species Acropora hemprichii · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
No Swiss-Prot hit above the reporting threshold for this gene.
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0000519 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF13229
all species →
Beta_helixRight handed beta helix regionRepeatInterproscan
PF00629
all species →
MAMMAM domain, meprin/A5/muDomainInterproscan
PF00530
all species →
SRCRScavenger receptor cysteine-rich domainDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR000998
all species →
DomainMAM domainInterproscan
IPR036772
all species →
Homologous_superfamilySRCR-like domain superfamilyInterproscan
IPR013320
all species →
Homologous_superfamilyConcanavalin A-like lectin/glucanase domain superfamilyInterproscan
IPR039448
all species →
DomainRight handed beta helix domainInterproscan
IPR000742
all species →
DomainEGF-like domainInterproscan
IPR012334
all species →
Homologous_superfamilyPectin lyase foldInterproscan
IPR011050
all species →
Homologous_superfamilyPectin lyase fold/virulence factorInterproscan
IPR006626
all species →
RepeatParallel beta-helix repeatInterproscan
IPR016186
all species →
Homologous_superfamilyC-type lectin-like/link domain superfamilyInterproscan
IPR001190
all species →
DomainSRCR domainInterproscan
IPR053243
all species →
FamilySeptate junction maturation regulatorInterproscan
IPR017448
all species →
DomainSRCR-like domainInterproscan
IPR016187
all species →
Homologous_superfamilyC-type lectin foldInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR47653
all species →
PROTEIN BARK BEETLEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0016020
all species →
Cellular ComponentmembraneInterproscan

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 Ahemp_021007-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 Acropora hemprichii 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 hemprichii, 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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