Detailed information of agem_s0001.g111.t1 in Acropora gemmifera

Genomic Location: sc0000001_pilon:2260765...2262679
NR annotation: XP_015761248.1, PREDICTED: putative neuropeptide Y receptor type 6 [Acropora digitifera]
Species Acropora gemmifera · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q924H0Neuropeptide FF receptor 2 OS=Mus musculus OX=10090 GN=Npffr2 PE=2 SV=2
Q18534Neuropeptide receptor npr-1 OS=Caenorhabditis elegans OX=6239 GN=npr-1 PE=1 SV=1
P49683Prolactin-releasing peptide receptor OS=Homo sapiens OX=9606 GN=PRLHR PE=1 SV=3
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0000077 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF00001
all species →		7tm_17 transmembrane receptor (rhodopsin family)FamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR000276
all species →		FamilyG protein-coupled receptor, rhodopsin-likeInterproscan
IPR017452
all species →		DomainGPCR, rhodopsin-like, 7TMInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR24241
all species →		NEUROPEPTIDE RECEPTOR-RELATED G-PROTEIN COUPLED RECEPTORInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0004930
all species →		Molecular FunctionG protein-coupled receptor activityInterproscan
GO:0007186
all species →		Biological ProcessG protein-coupled receptor signaling pathwayInterproscan
GO:0016020
all species →		Cellular ComponentmembraneInterproscan
GO:0005887
all species →		Cellular Componentplasma membraneInterproscan
GO:0032870
all species →		Biological Processcellular response to hormone stimulusInterproscan
GO:0042277
all species →		Molecular Functionpeptide 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 agem_s0001.g111.t1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of agem_s0001.g111.t1 across 48 RNA-seq samples of Acropora gemmifera. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

48Samples
48TPM > 0
1Conditions
2,913.3Max TPM
533.3Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
branch tip 48 48 533.26 2,913.33

Per sample · hover a bar for the full sample record

Show the sample table (48 samples)
SRA runConditionTissueDevelopmental stage TreatmentStudyTPM
SRR3182784 branch tip branch tip not recorded not recorded SRP062488 2,913.33
SRR3182777 branch tip branch tip not recorded not recorded SRP062488 2,556.73
SRR3182781 branch tip branch tip not recorded not recorded SRP062488 2,039.28
SRR3182786 branch tip branch tip not recorded not recorded SRP062488 1,735.45
SRR3169536 branch tip branch tip not recorded not recorded SRP062488 1,662.67
SRR3169539 branch tip branch tip not recorded not recorded SRP062488 1,208.29
SRR3169423 branch tip branch tip not recorded not recorded SRP062488 933.54
SRR3182785 branch tip branch tip not recorded not recorded SRP062488 852.00
SRR3169540 branch tip branch tip not recorded not recorded SRP062488 824.58
SRR3182778 branch tip branch tip not recorded not recorded SRP062488 806.81
SRR3182557 branch tip branch tip not recorded not recorded SRP062488 759.91
SRR3182780 branch tip branch tip not recorded not recorded SRP062488 721.06
SRR3169541 branch tip branch tip not recorded not recorded SRP062488 664.53
SRR3182685 branch tip branch tip not recorded not recorded SRP062488 646.35
SRR3169529 branch tip branch tip not recorded not recorded SRP062488 605.53
SRR3182410 branch tip branch tip not recorded not recorded SRP062488 592.19
SRR3182776 branch tip branch tip not recorded not recorded SRP062488 528.55
SRR3182779 branch tip branch tip not recorded not recorded SRP062488 521.36
SRR3182686 branch tip branch tip not recorded not recorded SRP062488 487.32
SRR3169538 branch tip branch tip not recorded not recorded SRP062488 481.94
SRR3182448 branch tip branch tip not recorded not recorded SRP062488 380.75
SRR3182793 branch tip branch tip not recorded not recorded SRP062488 376.11
SRR3169531 branch tip branch tip not recorded not recorded SRP062488 351.25
SRR3182684 branch tip branch tip not recorded not recorded SRP062488 344.72
SRR3169532 branch tip branch tip not recorded not recorded SRP062488 233.61
SRR3182775 branch tip branch tip not recorded not recorded SRP062488 228.01
SRR3169530 branch tip branch tip not recorded not recorded SRP062488 226.17
SRR3169518 branch tip branch tip not recorded not recorded SRP062488 225.40
SRR3182787 branch tip branch tip not recorded not recorded SRP062488 223.38
SRR3182794 branch tip branch tip not recorded not recorded SRP062488 216.65
SRR3182789 branch tip branch tip not recorded not recorded SRP062488 193.83
SRR3169535 branch tip branch tip not recorded not recorded SRP062488 189.48
SRR3169534 branch tip branch tip not recorded not recorded SRP062488 177.54
SRR3169527 branch tip branch tip not recorded not recorded SRP062488 152.50
SRR3182792 branch tip branch tip not recorded not recorded SRP062488 111.95
SRR3182790 branch tip branch tip not recorded not recorded SRP062488 70.33
SRR3169537 branch tip branch tip not recorded not recorded SRP062488 63.08
SRR3182788 branch tip branch tip not recorded not recorded SRP062488 52.49
SRR3169425 branch tip branch tip not recorded not recorded SRP062488 46.37
SRR3169421 branch tip branch tip not recorded not recorded SRP062488 40.53
SRR3169528 branch tip branch tip not recorded not recorded SRP062488 35.00
SRR3169533 branch tip branch tip not recorded not recorded SRP062488 28.69
SRR3182791 branch tip branch tip not recorded not recorded SRP062488 22.34
SRR3169422 branch tip branch tip not recorded not recorded SRP062488 21.26
SRR3169426 branch tip branch tip not recorded not recorded SRP062488 15.95
SRR3223317 branch tip branch tip not recorded not recorded SRP062488 10.78
SRR2169558 branch tip branch tip not recorded not recorded SRP062488 10.73
SRR3223319 branch tip branch tip not recorded not recorded SRP062488 6.35

Source: CnidoSite RNA-seq expression matrices (AGEMM_TPM, StringTie quantification over 48 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.

Co-expression network

Genes whose expression across the transcriptome samples of Acropora gemmifera 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.

DirectionPartnersMost correlated partnerPCC
Positively correlated0not in this network-
Negatively correlated196agem_s0081.g16.t1-0.479096252476217

Open this gene in Network Analysis → The network opens with the gene already entered and both directions selected. There you can add up to 9 more genes, switch between the positive and negative network, and export the edge list.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Acropora gemmifera, 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.readyopen →
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