Gene detail

Detailed information of BRAKERKYLP00000005486.1 in Mastigias papua

Genomic Location: chr12:5427155...5452235
NR annotation: no NCBI-NR hit recorded
Species Mastigias papua · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKYLT00000005486

ATGCTTGATATATTTTCTTGTCCTTTAGATGTCAGCAGCTTGTTAATTGACCTCAGCAAGATTGGGATAGTCCTTGATAGTGGAGATGATATAGTTTTACTCATACAGAGCTATGAGAAGAAGCTTCAAGAATTGAGAAAGGATGTCAATGCTTTTAGAGAGAGTACAGCTAAAAAGGAGGAAGAACTAGTAAGTTGGATGACAAAGCATATTGAAGATCGGCAGACAATAAGCAAACTTGAAGGTCAATTAAGAGCGCAGACTAAGGACGAAGAAGAGCATATTTATGAATCAATTCGAAGCACCAATTTAGATAGAAAAAATCAGTTATATGATACCATTGGggttttagaaaatgaaaaatcagaactgaaaattgaaaatgattcattGAATAGAAAGGTGATTGATCTACAGCGTGAAATTAACGATCGAAACAAAGATTCTCAGTTACATAAACAGATAGACAACCTCCGTGAAGAGAATAAAAATTTGGTCAAGCAAATTGAATCTGTGAATTCAGAACTTGCAGAACTTAAAGGTAAAAATGAAGAGTTGCGAGAGCTTCTCAGTTCCCCAGACAatgaaggaaaagaaagatacAGATTATCTATAGAGTTGGAAAAGGAGCATgcaaaactaaagaaaatagaaCCAGAACTGACCAATTTGCGGACAgataatttcaatttgaaaacttcGAATTGCGAATTGAAAGAGGAGATTATTTACTTGAAAACTAAGCTTGGTGAAACAGATGTCATAGTGAAACAGAGGGAACTAGAATATGGTTTTGCTTTGGAACAGGTTTCAGCATTGAAGAAAGAAAAGCTAAATCTCATGGAAGAGCTTGAAgagaaagtgaaagaaattcATGATGTGAAGGAAAAATTTGATGGTTCAAGAGAAATCATGAACAGAGTTGAAGGCTTGCAGACTGAGAACAAATACTTGCAAGCCCAAATTGCGAAagataaagaaacatttcaactAGAATTAGATGTTGTTAGAAGTCAAAGGGAGAGAAGCAAAGTTGAATTGGTATCTCTAAGGAAGGAGCTTGATAAAAAGAGTAGCATGGTTGTAGAAAAAGAAGTGGAAATCAGAGACTTAAAGGAAAGGAAAGCCTCCCAAGAAGTATTAGAGAATGAAGTTGATGTAAATGGATTAAAGCAATTCGGAGTATTTTTGGCGTCTAGGCCTTCCAGGGTCTTGATCACTGATGCTTTAGAAGCACAACAGAAGTTTGTGAAAGCTGGTGACTTTGTACTTTCCATAAACGGTGTCAATGTTCAGAATGCAACAAATGAATCTATGTGGAGCCTCATTAATGAAGATCCAATGAATCTGGTTCTCTTGCGTCCAGTTGCCAGTGAGCAAGAATACGAAATAAAACATCAAGAAAAAGGTTTGAAGCTAGAACAGTCcttcaaagtgtcacatttaaCACGCACTGCTTCACATGCAGGGATAAGGATTGGGGATGAGATTATCAAGATTGACGGTCATGATGTGCAGTCACTAAGCGCTCACAagattgaaaagaaattatcCAGTTCATCTGTTAAACTCTATATTCGCCGTGCAGAGGAGGTTGTGCACTCAATTGCGAATGCATCGTCGAGCTCCAGTGGATCAGGCCACACTTACGAGTCAATCGAAGACACGAACCAATCTCCAAAAAGTGGAAAAAGTAGCAGGATTGATTGGAAGAGTAGGTCAAGGTTGAGTTTGACGAGTTCACATTCATCAGCATCTTGGTCCACAAATCCAACTGGAAGCCAAGTTGAGCATCCGCGTAAGGAGTCGTTCGACTGTGACTTTCGTCGCACGACAACATTTCAAGGCTATCAGTCATTGAAGGAGCTTACCACAGAAGAAGATATTGTGGTCACCAGTGAAGGTCCACTGATTAGAAATTACGATACTGAAGGGAGTGGTGACTCAGAAGTTGCAAGGGAATTGCCGAAACGGCCGCACGCTAGGGAGGAGAAAAAGTCATTAGGTCATGAAGATGGGTATGTAGACATGACGGCTGGAGAGCAACACTATCTGACGCCAGTTGCACACCAGGGCGAAACTCTTTCTAGGATATCCGAGTCATCAATGTCTGTTCCGAATGGAGGTTCTTCTCATGGTTCGTCTGAATATGAGCAAGAGCGCCAAAGCATTCGTAGTGGACAGTCACCTACTTTGGCCCATCGTCCTCAGCAAGCATTGCCTGTTGTGACCGGGCAAGCACAAGGCGCGGAGTATCAATATGTAAATCATGGGAGGCTATATGGAAGACAAGGGCAGTTATTggatatttcattgaaaaagcaCGCCAGTGAATCATCGTTTGGTTTCACGATGTTTGGAGGGAATTTAATCGGAATATTTGTGGATACTGTCGATTGCTCATCCCCCGCAGGGAGAGAGGAGGTACCAAAGGGTGCACGTATAATTTCGATGAATGGTCACGATTTTACTGACGTAGCGTTTTGTTTCGCTGCCGAAACACTTAGAGGCCTGGCCACCTCAACAGTCCTcaagatgaagatgattttgacATCAGCTGATCAGCTAACTAAGTTCCGTTTGCAGAGACCATAcgactcttttacagtaagGGCGCTCGTTGATGCTCCAGAAATGGCAGGTTGCACTTTGCCATTCAAAGAAAATGATGTATTAACAGTAACAGATACCTATGAAAATTATGAACCGGAAAGTGGTGGCTACTTGTGGCATGCAATGAAGACTATCGACGGGGGTGTCATAAGAGAGGGGTCAATACCAGCAGAACAGAGCAACGCACTTCCCTACTCGGATGATTACCCCGAAGCATTTGAAGTGTACGGTGCAATGAAAGTTAAAGAGAAACCAGGAATTCTTAAAGCCCTTAGAAAGAAACCATCTTCGCATAAAATGAAAGGTCAGAAATTGACTTTTTTCTAG

Transcript

BRAKERKYLT00000005486

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)	OG0002659 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for BRAKERKYLP00000005486.1 in Mastigias papua.

InterPro

InterPro term	Type	Description	Source
IPR036034 all species →	Homologous_superfamily	PDZ superfamily	Interproscan
IPR005561 all species →	Domain	ANTAR domain	Interproscan
IPR001478 all species →	Domain	PDZ domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13865 all species →	TIGHT JUNCTION PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0005923 all species →	Cellular Component	bicellular tight junction	Interproscan
GO:0045216 all species →	Biological Process	cell-cell junction organization	Interproscan
GO:0050839 all species →	Molecular Function	cell adhesion molecule binding	Interproscan
GO:0098609 all species →	Biological Process	cell-cell adhesion	Interproscan
GO:0150105 all species →	Biological Process	protein localization to cell-cell junction	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 BRAKERKYLP00000005486.1.

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 Mastigias papua 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 Mastigias papua, 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 →