Gene detail

Detailed information of BRAKERYMEP00000004995.1 in Astreopora myriophthalma

Genomic Location: BLFK01000134.1:2642624...2648611
NR annotation: XP_015766450.1, PREDICTED: E3 ubiquitin-protein ligase CBL-like [Acropora digitifera]
Species Astreopora myriophthalma · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERYMET00000004995

ATGATTGGCTGTTTGGCGACACCACGTGACAACAGACGTTCTCGAACACGGAAATTGCAGTCGAGCAAATggatcaaaatggcggatgcaGCTCCACTAGGTAGTCGAAGTTCGCGGTTTCTTTCTCGACTGCATGAAGCGTTGGCCCATGCTGTGACACCTCGGCTGCAAATCGATAGGAAAACTATCGAGAAAGCATGGAAGCTGATGGACAAAGTGGTGAAACTTTGTCAGAATCAACGATTGTCTCTAAAGAACAGTCCCCCGTACATTCTCGACATTCTGCCTGATACTTATCAACATTTGAAGTTAATTGTCTCGAAGTACGAGGATCGCATGCACATTTTGAACGATTGCGAGTATTTTAGAATATATATAGAGAATCTTATCAAGCAATCAAAGCTCGCCATCAAGCTTTTCAAGGAAGGAAAGGAGAAGATGTACGTGGAAGATTCCACGTATAGACGAAGCTTGACAAAACTAAGTCTCGTCTTCAGCCATATGCTCGCTGAAGTCAAGGCAATATTTCCACAAGGAACGTATATCGGGGATGGTTTTAGGATCACAAAGTATGATGCTGCTGAGTTCTGGAAGAAGTCATTCGGTGTCGGCAAAACAACAGTGTCATGGAAACAATTTCGACAGATACTTCAGACAGTACATTCAATCAGTTCAGGTCTGGAAGCAATGGCTCTCAAATCAACAATTGACTTGACATGTAATGATCACATTTCCGTATTTGAATATGACGTCTTCACAAGATTGTTTCAACCATGGTCACATCTGCTTCAAAACTGGAATCTTCTTGCTGTGACACATCCTGGTTATTGTGCTTTTATGACTTATGATGAGGTTAAAGCAAGGCTCTGCAAGCATCTTCAGAAGCCAGGAAGCTATATCTTCAGGTTGAGTTGTACAAGGCTTGGCCAGTGGGCAATAGGATACGTTACACCTGAGCACAATATTCTGCAAACCATTCCTCAGAACAAATCTTTGTGCCAGGCACTAATTGATGGAGCAAGAGAAGGCTATTATCTTTATCCAGATGGCAAGACTGACAACCCTGATGTTAGCCAGCATCTCATTACACCTACTGATGAACACATAACAGTCACAGAGGAACAGTATGAGCTGTACTGCGAGATGGGTTCCACTTTCCAGCTGTGTAAGATCTGTGCTGAGAACAACAAAGATGTTCGTCTGGAGCCGTGTGGTCACTTAATGTGTCACATATGCTTGGAACAGTGGCAAGATACGGGTGGTGATGGGTGTCCATTCTGTCGATCTGAGATAAAAGACATGCAGTCTATTGTCGTGGATCCATTTGTTCCACTCCGTGAACAGGTGTCATACACACCTTCTGCAGAGCTCCAAGAAAATCATGTTGACTTTGATGAAGAGGAAATTATGGAGGACCTCAGTCAGTGGATGCCTTTCTCAGAATCAAGAGGTTTGTCCTCACAGCACCAAAGCAATGACCTTATCAGACACACGGGAGATGGACCACCTCCTTTACCTCATAGACGAAACCATATGCTTAATCTGCAGTCACCAGCATCTCCCACACTCATTGTTACCCATGCATCACCATTCAGTTCTCCTAGATCCTCGTCAAGGTCATCACCACACAGTTCCCCGTTCACGTCACCTCGCAACTCACCAAAAAATTCTCCAAGAACTTCCCCATTAGTTTCTCCAAATGTCTCGCCACATTCTTCACCGCAGGTATCTCCATGTGGCTCGCCACAAAATTCTCCAGCACAGTCACGGAGAGGAAGACCACTACCTCCACCTGCAGAGTCAGATGAGGAAAGCCCTCCTGCTGTACCAGAAAGGAGGTACAAGAGCAGAATTGGAAGCttggagaaaaaggaaaaaaagagagcttctgaaaaagagcaaaacagCAGGAGAAATACAATTGGATATGCAGACATTGATGCTGCAAGTGTACCTGTATTGCAAGATATGCACAATCAAAATCAGAATACAACAAATTATGCACAGCTAGCCTATCCAGCTCCTAGTGATGATGGGTTGATTGAGGCAAATTTTGAAGGTAGTGCTGCAAATGGAAATATGTTTGCTGAGATTTGTCCAGTTGACGAAGGGACTCCGTATGATTTTCCACTGCCTATTTTGTCAGAAAAAGAGAACTCGAAGGATAAAAAAAGGACAAAGGAGAATGGCTTAGAGGGTGCAATGAGAGGCTTGGAGCCAGTCTCAGATCCTTTTGCAGATGACCCATTTAAATCGCATGGAAAATCAAAAGCTGCTCACTTTGATAATGATTTGAAAAAGGCCCCATTGGTTGTGGCACTGCCTCCAGTGCACTCGCAAAGCTTTAATATGGGAGCACCACGCAAAGGCAGTACTCAGAAACATACACATTCATCACCAAACAGGACCTTTACTAAGGCAAGATCCACTGATGATGTTCTTGATGATGCTTCTTATTCAAATGTTAAAACTGCCAGCAATTCTAATGAACAGGAAAGGAATAGGAATTCCACTGCGACTGTGTCTCATAACAGAGCTTCACGCCCAGTTCTTTTCTCTCGGAACAGCTGGGCAGGAGCAGAAGCAAAGAGTTTCCACAACCCAACATATGGTGCAGAGCATTTTGATCCTAGTAAGCTAGAACCCCAAAGTGATGGTCACAGGCCACCACCAAGATTTCCAGATGATGCAAATGCTGATGCCATGCAGTTTTATGAAGAGGATTTTACTATCCTTCAAGCTCAGGGTTACACTCGAGAGGAGATTACAAGGGCTCTGATTGTGgctgaaaacaattttgcaatGGCCAGAAAGATTCTTCGTGAATTTTCTCAAGGGACAAGAAAGCTGTAA

Transcript

BRAKERYMET00000004995

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6GQL0	E3 ubiquitin-protein ligase CBL-B-A OS=Xenopus laevis OX=8355 GN=cblb-a PE=2 SV=1
Q6DFR2	E3 ubiquitin-protein ligase CBL-B OS=Xenopus tropicalis OX=8364 GN=cblb PE=2 SV=1
Q6NRE7	E3 ubiquitin-protein ligase CBL-B-B OS=Xenopus laevis OX=8355 GN=cblb-b PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005763 (this species only) · gene tree & orthology
Ubiquitin family	E3\|E3 activity RING\|RING · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13920 all species →	zf-C3HC4_3	Zinc finger, C3HC4 type (RING finger)	Domain	Interproscan
PF02262 all species →	Cbl_N	CBL proto-oncogene N-terminal domain 1	Domain	Interproscan
PF02761 all species →	Cbl_N2	CBL proto-oncogene N-terminus, EF hand-like domain	Domain	Interproscan
PF02762 all species →	Cbl_N3	CBL proto-oncogene N-terminus, SH2-like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036860 all species →	Homologous_superfamily	SH2 domain superfamily	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR003153 all species →	Domain	Adaptor protein Cbl, N-terminal helical	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR024162 all species →	Family	Adaptor protein Cbl	Interproscan
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR036537 all species →	Homologous_superfamily	Adaptor protein Cbl, N-terminal domain superfamily	Interproscan
IPR017907 all species →	Conserved_site	Zinc finger, RING-type, conserved site	Interproscan
IPR015940 all species →	Domain	Ubiquitin-associated domain	Interproscan
IPR024159 all species →	Domain	Adaptor protein Cbl, PTB domain	Interproscan
IPR014741 all species →	Domain	Adaptor protein Cbl, EF hand-like	Interproscan
IPR014742 all species →	Domain	Adaptor protein Cbl, SH2-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23007 all species →	CBL	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0007166 all species →	Biological Process	cell surface receptor signaling pathway	Interproscan
GO:0004842 all species →	Molecular Function	ubiquitin-protein transferase activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0007175 all species →	Biological Process	negative regulation of epidermal growth factor-activated receptor activity	Interproscan
GO:0017124 all species →	Molecular Function	SH3 domain binding	Interproscan
GO:0023051 all species →	Biological Process	regulation of signaling	Interproscan
GO:0030971 all species →	Molecular Function	receptor tyrosine kinase binding	Interproscan
GO:0045121 all species →	Cellular Component	membrane raft	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase activity	Interproscan
GO:0001784 all species →	Molecular Function	phosphotyrosine residue binding	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	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 BRAKERYMEP00000004995.1.

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 Astreopora myriophthalma 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 Astreopora myriophthalma, 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 →