Gene detail

Detailed information of evm.model.HiC_scaffold_28.2 in Chrysaora quinquecirrha

Genomic Location: HiC_scaffold_28:21534...33494
NR annotation: XP_029214372.1, phosphoribosyl pyrophosphate synthase-associated protein 2-like isoform X2 [Acropora millepora]
Species Chrysaora quinquecirrha · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.HiC_scaffold_28.2

atgcaaacaaaattaGCCTTTTGCAGATGGAATCAAACgcattttaatttaaaattcatTCCCATTGTGAATTCACTTGTTTCAAAACAAaTTTTTAAATTTCACACCACAGTCCATGTGtcagatgaaaataaagaagttGGAAAATGGGTTCCAGCTTATCCTGATCTCAGAACGAGAATTGGATATTATTTAAGGCTATCAAAGGCAAGGTTGTCTGGCTTGGTTGTTTTATCTGCAATGGGTGGATATGCAGTTGCACCTGATCCATTTAACCTTGTGTCATTTAGTTGTTTATCAATTGGAACAGCGTTGTGTTCAGGTGCTGCTAATTCCTTTAATCAGTTCTTAGAAGTTCCTTACGATTCACAAATGTCAAGAACCAGAAATCGTGTTCTAGTTTTAGGACTACTGCAACCACACGAAGCCTTCCTTTTTGGAGCAGTTTCCAGTATCGTTGGAGTATCGATATTGTCGTTTGGTGTGAATTCATTGACAGCTGTCTTTGGTGCTTTGAACATATTTCTTTATGCTGGTGTATACACCCCATCAAAACGATGGTCGATTGCTAATACATGGATTGGTTCAATTGTTGGAGGTATCCCACCTTTAATGGGTTGGGCTGCTGCTACTGGTACATTAGGTGCAGGTGCATGGGTACTTGCAGGCATGCTTTACAGTTGGCAATTTCCTCATTTCAATTCTTTAAGTTGGAGTTACCGTCCTGATTATTCTCGAGCTGGATACAGAATGATGGCTGTAACAGACCCAGCCCTCTGTCGGCGCGTTACATTACGTCACAGTGTTGCTCAAATTCCATTGGCATTTCTGCTTCCAGTTCTTGATGTTACAAATTGGTGGTTTTTCATCGAATCTCTTCCATTAAATTCATATTTAACTTATCTTGCCTGGAAGTTTTATAGAGACTCTAATAACAAATCCTCAAGAAAACTATTTAGATTTAGTTTAATACATTTGCCTATTTTAATGATGCTAGCATTTTTCAATGTTAAAAAATCACCTCACAAAGAAGCAACAAACGATTTAGAACATTTAGAAACCTGTGGCGAACCAGATTGCTACTGTTATTTGCTCAATATTCAAGTTCAGAAAGGATTAAAAACAGCAATGTCTAATGCAGCTAATTCTGGGATTCTTCTTTTCTCACTGAAAGGAAATACAGAGCCACTAGCTGTCAGTGTTGCAAAGAGGCTGGGAATCTCACTTGCTTCGCTTAAGcttggatttttcaaaaataaagAAACAAGAATTGAGATAGAATCATCAGTTAGAGGAAGAAATGTGTTTCTCCTTCAGATTGTGGATGATGATCCCAATGATTCAATCATGCAACTGCTAATCACATCATATGCTTTGAAAACATCTTGTGCAAACAGAGTTGTTGGTGTCATACCATATCTTCCATATTCAAAACAAAGTAAAATGAGAAATCGAGGAGCAATACCTTCCAAATTGATTGCAACAATGCTGTGTCGAGCTGGAATGGATCATGTGATAACCATGGATCTGCATTCAAAAGAAATTCAAGGATTTTATAATTGTCCTGTGGACAACCTGAGAGCTTCTCCATTTTTGATACAATACATACAAGACAAGGTTCCAGATTACCGAAACGCTGTAATTGTTGCAAGAAATCCTGCATCAGCTACAAGAGCACAATCATTTGCAGAGAGGTTAAGGCTTGGTCTTGCCGTCATACATGGTGATCAGCTTGAGACTGATAGTGAAGTTGTTGATGGAAGACATTCTCCTCCGCCTGAAAGATCTCgtaaatcatcaaaaacagtTTACAGTGAAGTCTCATCACAGCTCATTCCACCAGGATTGCCAATTAAAACAAAACATCCGATGAATCTAGTTGGAGATGTTGACGGAAAAATTGCCATTATAGTGGATGAtatgatcgatgacgtcacaccTTTGATTAGAGCAGCCAAACTTTTGAAAGAACGTGGAGCTTACACAATTTATGTTGTTGCGACACATGGTCTCTTATCATCAAATGGTCCATCGTTGATTGCAGATTCTTTCATCGACGAAGTGATTGTTTCAAACACCATTCCATTGCAAGAAAAGCAAACAACATGTGAAAAAATCCGGACAGTTGACATCAGTCCGATTCTTGCTGAAGCAGTCCGCAGAATACATAATGGTGAATCGATGTCATATCTTTTTAGAGATATTCCTCTCGAAGATTAG

Transcript

evm.model.HiC_scaffold_28.2

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5ZL26	Phosphoribosyl pyrophosphate synthase-associated protein 2 OS=Gallus gallus OX=9031 GN=PRPSAP2 PE=2 SV=1
Q5RBA8	Phosphoribosyl pyrophosphate synthase-associated protein 2 OS=Pongo abelii OX=9601 GN=PRPSAP2 PE=2 SV=1
O08618	Phosphoribosyl pyrophosphate synthase-associated protein 2 OS=Rattus norvegicus OX=10116 GN=Prpsap2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001402 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14572 all species →	Pribosyl_synth	Phosphoribosyl synthetase-associated domain	Domain	Interproscan
PF01040 all species →	UbiA	UbiA prenyltransferase family	Family	Interproscan
PF13793 all species →	Pribosyltran_N	N-terminal domain of ribose phosphate pyrophosphokinase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR044878 all species →	Homologous_superfamily	UbiA prenyltransferase superfamily	Interproscan
IPR006369 all species →	Family	Protohaem IX farnesyltransferase	Interproscan
IPR029057 all species →	Homologous_superfamily	Phosphoribosyltransferase-like	Interproscan
IPR005946 all species →	Family	Ribose-phosphate pyrophosphokinase	Interproscan
IPR030470 all species →	Conserved_site	UbiA prenyltransferase conserved site	Interproscan
IPR000836 all species →	Domain	Phosphoribosyltransferase domain	Interproscan
IPR000537 all species →	Family	UbiA prenyltransferase family	Interproscan
IPR029099 all species →	Domain	Ribose-phosphate pyrophosphokinase, N-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43448 all species →	PROTOHEME IX FARNESYLTRANSFERASE, MITOCHONDRIAL	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006783 all species →	Biological Process	heme biosynthetic process	Interproscan
GO:0008495 all species →	Molecular Function	protoheme IX farnesyltransferase activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0000287 all species →	Molecular Function	magnesium ion binding	Interproscan
GO:0004749 all species →	Molecular Function	ribose phosphate diphosphokinase activity	Interproscan
GO:0009165 all species →	Biological Process	nucleotide biosynthetic process	Interproscan
GO:0016765 all species →	Molecular Function	transferase activity, transferring alkyl or aryl (other than methyl) groups	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006784 all species →	Biological Process	heme A biosynthetic process	Interproscan

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 evm.model.HiC_scaffold_28.2.

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 Chrysaora quinquecirrha 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 Chrysaora quinquecirrha, 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.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search 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 found	open →
Expression heatmap	Draw 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 / orthogroup	Look 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 analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →