Gene detail

Detailed information of amic_s0258.g20.t1 in Acropora microphthalma

Genomic Location: sc0000258_pilon:343341...356415
NR annotation: XP_029185427.2, merlin-like [Acropora millepora]
Species Acropora microphthalma · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

amic_s0258.g20.t1

CCTGTTACAGATGCCACCTGGTGAGCTTTATATGAAGGGTGAAACTGGTATAAAATTGTTTTGTACGGCGAAACGGATGTTTTTAAGCGGGGGCACGGAAAAAATTCTCGACATAGCAAAGTGAGGATATGTAGGCGACAAATAGCCTTGAAAAACAGAATGCTTAGCATGCTGCAGCTTATTTTACAGGGGTGAAACAACGATCCAAATGCTGGGTCGTTATGCCGAAGACATTTGACGTTCGCATAACGACCTTTGACGCTGAGCTTGAATTTTCTGTGGAGAAAAAATGCACAGGGAAGGAATTGTTTGATCTTATTGTGCGCACATTGGGTGTTCGTGAGACTTGGTATTTCGGTCTACAGTATGTGGACAAGAAAGGCGTTGTTTCGTGGCTCAAATTCAACAAGAGGGTCTTAGATCAAGATATTACCAAGGAGGATCCCGTCAACCTCAGTTTTCGCGTGAAGTTTTATCCTGAAGATGTGGCTGAAGAACTCATGCAAGAAATTACACAGCACTTGTTTTTCCTTCAAGTCAAGGAAGCTATTCTCAACATGGACATTTTCTGTCCACCAGAAGCTTCTGTTCTTTTGGCTTCTTATGCAGTTCAAGCAAAGTATGGAGACTACGACAAAGAGTTTCACAAACCTGGATTCCTGGCAAATGACCTGCTGTTGCCTCAAAGGGTAATTGATCAGTATCAGATGACTGCAGACATGTGGGAAGAAAGGATCACATCTTGGTATGCCGAGCACAAGGAAATGAGAAGAGATGAAGCAGAGATGGAGTATCTGAAAATAGCACAAGACTTGGAGATGTATGGTGTGATGTACTTTGAAATCAAGAACAGAAAAGGAACTGACTTGTGGCTTGGAATCGATGCTCATGGTTTAAATATTTATGAAAGAGAAAACAAGTTGAACCCGAAAATCTCTTTTCCTTGGAATGAAACCAGGAATATTTCCTTCCATGATAAAAGGTTTCAGATCAAACCTGTTGACAAGTCATCACCTGATTTTATATTTCATGCGTTAAAACTGAGAGTCAACAAGGTGATCCTAGACTTGTGTGTCGGTAACCATGAGCTGCACATACGTAGAAGAAAACCAGATACAATGGAAATACAGCAGATGCGATCGCTTGCAAAGGAGGACAAAATGAGGCGCCAGATTGAAAGAGACAAATTAATGAAAGAAAAGCAAACTCGCGAGGAGATTATGAAGCAAAGGGACGAACTAGAGAAAAAATTGCTGGAATTTCAAGAAGAAGCAAGCAGAGTAAAAGAAGCGTTGATTAAATCTGAAGAGATGGGTGAATTGTTGGCAGAAAAAGCCAGAGTGGCAGAAGAAGAAGCCATATTACTCGGCAAAAAAGCATCTGATGCAGAAGAAGAAATCAAGCGCCTTCGCTTGTGCTTAAGCAAGCAATCTGGTGACGAGAGAATTGCCATCGAGAGAAGAGCTCGAGAAGCAGGAGAAGAAAGATTTAAGAGAGTTCTACAAGAGGCTGAAGCAAGAAAAAGGGAAGCTTTAATTCTGAGAGAGGACTTGATGAAATCTCGACAAGCCGAGAGACTGGCCAAACAAAAACTTGTGGAGATAACTTCGTCTCCGGAGTTGTTTTCTAGGTACAGTGATCCCAGGGAAATCATTGCAGATATTGACCGCAGTGTCAACCAGCTTATGGACGGCGATGTTAATCAGATTTCACGAGAACACGAAAGGGAAAGAAGCGGAAATGTACAACAACAGCTCCAGGACTTAAAAACTCAAATGGAGGGTCTTAAGATCAGTGACCGACAAACGCGATGGGATTACATTCATGACGAGAACATGAGACGTGGCGAAGATAAATATTCTACTCTACAAAAAATTCAGACCGAAACATCCACAGCAAGAGTTCAGTTCTTTGAAGAGTTGTGAAAAGAGCGTAAAGTTACTAATCCGCTTATATGTTGTGCGGGATTTTATGACAATTTTTTTTTTCAGtatttagacatataagatatatatatatatataaatTTTCTGTTATTTTGAGATATTCAACCCAGAGGAACAGATAAACAAATTAGACAAGTGAACTGGCACTTAAATGCACAGGTTTGGTGAAGAATCGCGGGATATCTCGTGCAAGCGTGAAGTGAGACTCAGAGGGCGTGTGATATCTCGCGATTCCCACCTTAAGGCAACCAATTCCTGAAATAGGAATTCAGCAGGTCTTACTTTTATCCAATTTTATTTATGAAATTTGAGCGGAAAATATTTCACTTACTCGATATTTTGTAATTTATTGGAGCACAATTTTTTATAAGGTAGTTTGTTCAGCTCTTTGACTCCATCACAGCAAGTGATTAAATGTACGAAAATTGTCTTCTTGCGTTGGACATAACTATGCATTCGATCAGAGTTACTCTGACTTGTTAGATAAATAGAAAAAGACGCAATTTTTGAAAGATTGTTATCCTATGAATAGTTCGAAAGGCACTGACTATGTTCATCAAGGTGTTACAATATTTTTCGTTGCTTGTACGGCAGAGGTCTTGCAAAAGAAGTTCTGGTAGTCACTTCCGCACAGTCAATACTGCTGTCACGCAGGCAAAAATTTTTAGTTGCTGATTAAAATATGTCTGCGCAT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P35240	Merlin OS=Homo sapiens OX=9606 GN=NF2 PE=1 SV=1
P59750	Merlin OS=Papio anubis OX=9555 GN=NF2 PE=3 SV=1
P46662	Merlin OS=Mus musculus OX=10090 GN=Nf2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001415 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF20492 all species →	ERM_helical	Ezrin/radixin/moesin, alpha-helical domain	Coiled-coil	Interproscan
PF00373 all species →	FERM_M	FERM central domain	Domain	Interproscan
PF09379 all species →	FERM_N	FERM N-terminal domain	Domain	Interproscan
PF09380 all species →	FERM_C	FERM C-terminal PH-like domain	Domain	Interproscan
PF00769 all species →	ERM_C	Ezrin/radixin/moesin family C terminal	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000299 all species →	Domain	FERM domain	Interproscan
IPR041789 all species →	Domain	ERM family, FERM domain C-lobe	Interproscan
IPR019749 all species →	Domain	Band 4.1 domain	Interproscan
IPR018980 all species →	Domain	FERM, C-terminal PH-like domain	Interproscan
IPR000798 all species →	Family	Ezrin/radixin/moesin-like	Interproscan
IPR008954 all species →	Homologous_superfamily	Moesin tail domain superfamily	Interproscan
IPR046810 all species →	Domain	Ezrin/radixin/moesin, alpha-helical domain	Interproscan
IPR019748 all species →	Domain	FERM central domain	Interproscan
IPR011174 all species →	Family	Ezrin/radixin/moesin	Interproscan
IPR018979 all species →	Domain	FERM, N-terminal	Interproscan
IPR019747 all species →	Conserved_site	FERM conserved site	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR035963 all species →	Homologous_superfamily	FERM superfamily, second domain	Interproscan
IPR011259 all species →	Domain	Ezrin/radixin/moesin, C-terminal	Interproscan
IPR014352 all species →	Homologous_superfamily	FERM/acyl-CoA-binding protein superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23281 all species →	MERLIN/MOESIN/EZRIN/RADIXIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005856 all species →	Cellular Component	cytoskeleton	Interproscan
GO:0008092 all species →	Molecular Function	cytoskeletal protein binding	Interproscan
GO:0003779 all species →	Molecular Function	actin binding	Interproscan
GO:0005178 all species →	Molecular Function	integrin binding	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0005912 all species →	Cellular Component	adherens junction	Interproscan
GO:0008285 all species →	Biological Process	negative regulation of cell population proliferation	Interproscan
GO:0008360 all species →	Biological Process	regulation of cell shape	Interproscan
GO:0030175 all species →	Cellular Component	filopodium	Interproscan
GO:0035330 all species →	Biological Process	regulation of hippo signaling	Interproscan
GO:0045177 all species →	Cellular Component	apical part of cell	Interproscan
GO:0050839 all species →	Molecular Function	cell adhesion molecule binding	Interproscan
GO:1902115 all species →	Biological Process	regulation of organelle assembly	Interproscan
GO:1902966 all species →	Biological Process	positive regulation of protein localization to early endosome	Interproscan
GO:2000643 all species →	Biological Process	positive regulation of early endosome to late endosome transport	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
K16684	NF2; merlin	-	Cytoskeleton proteins	ko04812	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 Acropora microphthalma 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 Acropora microphthalma, 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 →