Detailed information of g1241.t2 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: XP_012553727.1, rab effector MyRIP isoform X2 [Hydra vulgaris]
Species Calvadosia cruxmelitensis · all data for this species · gene families

 Sequence
Sequence data are not available for Calvadosia cruxmelitensis.
Nucleotide and protein sequences are provided for the species whose genome annotation is complete (see annotated genomes); for this species only the assembly is archived. The functional annotation below is likewise unavailable.
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q8NFW9Rab effector MyRIP OS=Homo sapiens OX=9606 GN=MYRIP PE=1 SV=2
Q8K3I4Rab effector MyRIP OS=Mus musculus OX=10090 GN=Myrip PE=1 SV=1
Q7TNY7Rab effector MyRIP OS=Rattus norvegicus OX=10116 GN=Myrip PE=1 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0012281 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF02318
all species →		FYVE_2FYVE-type zinc fingerFamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR013083
all species →		Homologous_superfamilyZinc finger, RING/FYVE/PHD-typeInterproscan
IPR010911
all species →		DomainRab-binding domainInterproscan
IPR041282
all species →		DomainFYVE-type zinc fingerInterproscan
IPR051745
all species →		FamilyIntracellular Transport EffectorInterproscan
IPR011011
all species →		Homologous_superfamilyZinc finger, FYVE/PHD-typeInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR14555
all species →		MYELIN-ASSOCIATED OLIGODENDROCYTIC BASIC PROTEIN MOBP -RELATEDInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0006886
all species →		Biological Processintracellular protein transportInterproscan
GO:0031267
all species →		Molecular Functionsmall GTPase bindingInterproscan
GO:0003779
all species →		Molecular Functionactin bindingInterproscan
GO:0017022
all species →		Molecular Functionmyosin bindingInterproscan
GO:0030864
all species →		Cellular Componentcortical actin cytoskeletonInterproscan

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 g1241.t2.

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 Calvadosia cruxmelitensis 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 Calvadosia cruxmelitensis, 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.sequence table not available–
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.sequence table not available–
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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