Gene detail

Detailed information of RMX44172.1 in Pocillopora damicornis

Genomic Location: SczhEnG_3058:533821...548097
NR annotation: no NCBI-NR hit recorded
Species Pocillopora damicornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-pdam_00002517

ggaattggatcaacaaataatcccttaattgatatttttctttagtctcattgcttgtctgcttgatattgtactgataatgtaaggagaaattctgtcttggtcactagtgggacttaaagggtaAAGAGACTTTCAAACTTAGTCGTCAGAAATTTCAGTCTTCTTAAACCccaaaaatatgtttctgcaatgtaaaaaaattgccatcCTGCAAGATTGTGAGGATTAACAAGGCTACAGAGGAAAACTTTCACTCTGCTTATCACATCAAAtgtaataccaaattctctttaatatatttcactttgtaagattgatttgaaaaacGAATTCCGTTCCTCTCAACTCTAACCAAAGGCATCAGTATATGTAAGAACACCCTGGATGTTGACAAACTAATAGACAGAAATTGGTCTTTCTAATGATCAGACAGtacaaaatgttaaatttatataaatatacacATATCAGCAAAATTATGGTACTTGAGTACCAgaactaatttttcttcagtgaTAATGATTTCATGAGTCTTGGTTTGATTCATTCACACTTAATGTTgtgttgtcttttttaatgAGCCGTCCATCATGAGGTATTAAATTTGGAATACCATTTTGTATTGAATATGCAACTCCAATGTCATCAGAAATCAGCTCATTTCTTGCATTGTCATACCTCAATGGCTTCTTTGTCAATGGACAAACTAAGATCTTTAACAACTTTTGGTCGAACTGGGTATTATCTTGATGTCTCCGTTGCTTCCCTACGCTAAAGCATCGACAAGATGCGATgtgaatgaaagaaactggTTTCTTTGGAATATTCTTGAATGTGATTCCCCAAAGCGAAGCtcccgccattttgaattacGCTTAGTAGCCGCTCGTAGTGATAAGGCTTGGATGGATAGCTgaagaaagctttcaaaatggcggatcAACGAGTGTCATGTGGTCGAGATTTCTTCTGTGTTCCGGATCTTGCTGGAGCGTTGAAGAATGCTACGAACGGAGGGTTTGATTTCATCTGTGTTCCCATCTGTCATCCAAGATACCGGAGAGAATTTCTGGAGCCTGTACCGGATCGGACTGGGGCGTTTACACGATCGGATCTGGTATTGCCGAGTCAAGATTGGAACAGTCTAATTGTTGGTAAAATCTCACCTTGGCTAAACTTGGACTCACTGAATGAGACTGTAAGGAAAAACTCAGAGAAAGCTCTACATCAGGAGTTGTGTTATTGTGTTCACTTGAGTCTTCCAGCTGTTCTTGTTCAATTGAAAAGCTACAACTGTGTTAACCTCGCCCAGCACATCAACACAAGTATAACTGACACACATGTCCAACAGgTCTGGGTTCATGTACCTATGAAAAGTCCTGAGGAtgattgtgataaaaatttgtttgctgaGGAGGAAGAAGTTTCAGGAAATGAGTTAGAGAAAGATCCTTGGGAATGGTGGAATTTGTTTAGAACCATTTGTGGGAACAGCAAAAGAGTTGGCCTGGCATTGGAGATCTCTGCTGAATTGCCTTCAGAGGAGGAATTAGAAAGATGGTGTGGGGAACCAGTCAAAGCAGCAATCTTACCCACAAGTTTGTTTCTTACAAATAAGAAGGGTTACCCTGTGTTGCCTAGAGCCCACCAGGCATTTGTTAGGAGATTGTTTAGgCTAAATACTCAACTGATTTTGACTGGTGTAAACAAGCATAAGGACAAGggatTAGGATTTTATTACCAGTACCTTGCCCACCTTTATCAGACACAGCCAGAGTTGGACAACTTGAGTCAGTTTGCCAAGGGGTATGAGGACTACCTTCAATGTCCCCTACAGCCGTTGATGGACAATCTTGAGTCTCAAACctatgaaatatttgaacGAGATCCCATTAAATACAGACAGTACCAAAAGgcgGTGCACCAGGCGTTACTGGATAGAGTTCCAGAAGACAAGAAAGATTCTGATGTAACagTGATAATGGTGGTGGGTGCAGGGCGTGGTCCCTTAGTGAGAGCGTCACTGACAGCAGCTGAGGAATCAGGACGGAAAGTCAGAATATATGCAGTGGAGAAGAACCCAAACGCTGTTGTCACATTGGAGACATTGAAAGAAGAGGAATGGAATGGTGACGTCACTGTAGTCTCATCGGACATGCGCGAATGGGATTCTCCCGaacagGCCGATATACTTGTGAGTGAGTTGCTGGGATCTTTTGGTGACAATGAACTTTCTCCAGAGTGTTTAGATGGAGCACAGAGGTTCCTGAAAGATGATGGGATCAGTATTCCCTGTGAATACACGTCTTTTCTTGCACCAATATCTGCTCCCAAATTACATTACGATGTGTCACAGGGAAACGACACAACCAAGGGACCCCTGGCCCCGTTTGAGACTCCGTACGTTGTAAGACTTCATAATATCACCGCTATGTCACCACCGCAGCAGTGCTTTGTTTTCGCACATCCAAACAGAGCGAGCAGAATCGACAATTCTCGAGTGAAATCACTCGAATTTGATGTGAAGACGAGTTTTACAATGCACGGCTTCGCTGGATACTTTGAAACAGTACTCTATGGGGACATTATGTTAAGTATCAAACCAGACACTCATTCGGAAGGCATGTTCAGCtggtttccatttttctttcccataAAGGAACCGCAGTATGTTACTGCGGGCTCAACAGTAGCCTGCCACTTCTGGAGAAAATGCACACCGAAAAAGGTCTGGTACGAGTGGTGTATATCACGTCCCGCCCCAGTTCCCCTTCATAATCCCGGAGGAAGATCTTACGTCATTGGACTCTAAACCGTTGAAAATAGTTGTGTGTTTTCTGTTTGTACCTTTCCTGTCAATAAAAGACCTGAGAGtcgatatttcttttttaaatgatgaGTGTTAGGGCCTactatgtaatttttttttttattttacgcATTTGAAGTCGATAACTGTCAAATTGTTTCAGAAGAATGGTATGTACAATTGAGCAGAGAAGgtatttataattatattttgatgTCGCAGTATCATCGATATTAAGTATAACCCTTTGCAGCAAAACGTTTCTGTTTGAATCGTTATTGCTGCAATAAAACCCGCTACCGTATCATAAACTGAATATCTGAAGTAATGAAATgcttgtttcagtttttgtcttttggtttACGCTTCTTTTGGCcactattttttcttttcgtttaaGAGAACGCTCTTAGTGACCGGAATTGTTCGCAAGGCTTgcaattgtttttccttcttaagGTGGAAAGTAACTCAATTTTAATTTCGTGAGACCAGTATCTCGTCGCCATCacgatattttcaatttctctgatAACCGATGTttgattaaaagCTTTTATCGTCTTTGACGCTTTTAATATTGCCTAATGGTACTTAGAACACGAACATTTCCATCAAAGaattagtttgtttttatttcaagtcgATTTTCCgctctttttttatcagaaaaacCTTGACCTTGTAAACTAAATCAATTTGGTTTCTTGGAGGAATCGTCTCGGAAATGACTGAAACTTTTAGGTTGTTATGTCAGATTGCATCAGAGCATAACTTGACGACACTAGAGCTAATATCAGTAAATTTctagataagaaaaaaacatcaagtgAGTTCAATGTAAACATTTCCAATGCATCACGTACGGCGTTACTCACTCTGGTGAAACGCTTGTAGAAGTCACGTTTTAAATCTCACGCGCACTTTAGCACTTTCAACACAGAGTTATCAGATATATGTTTGTATTAAATGTGCaagttgttttaaagttgACATGTTAATGAAGCTAACTTGCGGGTGGTTCGCGCTAAAAGGACAGAAATGGTAATTTATTTGGGAAATCGTTAGATTCGAATTACAGTTTGATGCGTGTGAAATTAGTAGTCACGAAAGGTGTCGGAAGACAGGAAAAGGAGATcagcaaattttcctttaaattattGTCTTTCCGCAATCAAGCGAGCTTCTGATTTTTCGTCAGGGCGTCCCATGCGTAACATTCATTTCCTGTGATTATCGTGTGAAGGTCCTCGATACTTCACTCAATACTTTTAATTGTGCTGGGTGCTTTTATGTGGGAAAACAAAGATGGTGTACTTATACAATTTGACCAGCATGTTGCCAAAAGCTTATGGTGCGTTTACAGCGTTAGCGTGattgaacttttgaaatgtttcgGTGTTATATTGGCGAAATAAAATTAAGCTGGACCCGTCAGTTAAGCACACAAAATACCTCGTTTAAAAAACTGCTTCCCAAAATAGAGGTCGCCATGAGAGAGGGAGTTTGTTGATATGTGTTTGATAGTCCCAGAAAATCTTCGTTAGTGTTTCTATTGTAATGAGTGAATGCTTTGTTAAGGTGTCCATTGTGAAATGGCagttatgaaaattatgattgggaaaattttaagaagcTAGGTCATTTGTTTGTGAAGCTGGCAAAGAACATTGCATTCAAAGTTGTTAATGACACACCTTGGTACTATGCGTTTTCATTTGAAGCTTCCACGGTATAGCTACATTTCTATTCTCCAGAACAACTATTTAAATGTAACTGTCGCgtgataaaaactgaaagtctATCAACTATTTGTCATCTGTTgtagaagtttaaaaaatgcGTCTTGTCGAAAAGTTGTTCATAATGAACTACTATCTACTTAGTGGCTTGTCCGTGTTCCGTCGCTTCATCAAATGCAAGGTCACTCATTTATTtagcataattttttgtcaaaaacaattaaatattcattcattctGTTGACTTCGTGCACTTcgattttatttgttt

Protein

UniProt (Swiss-Prot top hit)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006811 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17286 all species →	PRMT5_C	PRMT5 oligomerisation domain	Domain	Interproscan
PF17285 all species →	PRMT5_TIM	PRMT5 TIM barrel domain	Domain	Interproscan
PF05185 all species →	PRMT5	PRMT5 arginine-N-methyltransferase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR025799 all species →	Family	Protein arginine N-methyltransferase	Interproscan
IPR035248 all species →	Domain	PRMT5, oligomerisation domain	Interproscan
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan
IPR007857 all species →	Family	Protein arginine N-methyltransferase PRMT5	Interproscan
IPR035247 all species →	Domain	PRMT5, TIM barrel domain	Interproscan
IPR035075 all species →	Domain	PRMT5 arginine-N-methyltransferase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10738 all species →	PROTEIN ARGININE N-METHYLTRANSFERASE 5	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0008469 all species →	Molecular Function	histone arginine N-methyltransferase activity	Interproscan
GO:0016274 all species →	Molecular Function	protein-arginine N-methyltransferase activity	Interproscan
GO:0018216 all species →	Biological Process	peptidyl-arginine methylation	Interproscan
GO:0034969 all species →	Biological Process	obsolete histone arginine methylation	Interproscan
GO:0006479 all species →	Biological Process	protein methylation	Interproscan
GO:0008168 all species →	Molecular Function	methyltransferase activity	Interproscan
GO:0035246 all species →	Biological Process	peptidyl-arginine N-methylation	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K02516	PRMT5, HSL7; type II protein arginine methyltransferase	EC:2.1.1.320	Chromosome and associated proteins	ko03036	deepkoala

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 Pocillopora damicornis 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 Pocillopora damicornis, 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 →