Detailed information of ENSDLIP00000023309.1 in Diadumene lineata

Genomic Location: chr6:13827747...13836101
NR annotation: XP_020901823.1, protein YIF1B isoform X1 [Exaiptasia diaphana]
Species Diadumene lineata · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q6P301Protein YIF1B OS=Xenopus tropicalis OX=8364 GN=yif1b PE=2 SV=1
Q4FZQ0Protein YIF1B-B OS=Xenopus laevis OX=8355 GN=yif1b-b PE=2 SV=1
Q5U3G6Protein YIF1B OS=Danio rerio OX=7955 GN=yif1b PE=2 SV=2
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0003912 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF03878
all species →
YIF1YIF1FamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR005578
all species →
FamilyYif1 familyInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR14083
all species →
YIP1 INTERACTING FACTOR HOMOLOG YIF1 PROTEINInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005789
all species →
Cellular Componentendoplasmic reticulum membraneInterproscan
GO:0005793
all species →
Cellular Componentendoplasmic reticulum-Golgi intermediate compartmentInterproscan
GO:0006888
all species →
Biological Processendoplasmic reticulum to Golgi vesicle-mediated transportInterproscan
GO:0030134
all species →
Cellular ComponentCOPII-coated ER to Golgi transport vesicleInterproscan
GO:0030173
all species →
Cellular Componentobsolete integral component of Golgi membraneInterproscan

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
KOEnzymeEnzyme IDPathwayMap IDSource
K20362YIF1; protein transport protein YIF1-Membrane traffickingko04131deepkoala

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 Diadumene lineata 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 Diadumene lineata, 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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