Gene detail

Detailed information of alvinactis_v1_g8739 in Alvinactis idsseensis sp. Nov.

Genomic Location: chr_4:14455970...14519127
NR annotation: XP_031575027.1, protein flightless-1 homolog [Actinia tenebrosa]
Species Alvinactis idsseensis sp. Nov. · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

alvinactis_v1_g8739

atggcactacgcttgggatcACTCAAATggcagtttgatggacaagccaaaagctacgaaatgaagttggcatttgaacttctagccATGTTTACCACTTACATGTGCACGCGTGAGTTAGTTATGACGGAGTTGTCATCGCAAAAAGATAAGTACATAAAATGGCTTGCAGAAGAAATGGAGTTAAACCACAAGCACGAAGAATTACTTGCTAAAAGAGAGATGGTACTTGCTACCACCTCAAGTGTGTATAAGACCAAAGAGATACGACAGAAGTCGAGGAAGATGAATCTCCTCAGGGCAACAACCAGGAATGACCAGCTCATCCAGGAGGTAGAGAAAGCTCACCAGAGCCTCGGAAATAAAGTCAACAGTTCTGCTGCAGTTTCTTTTATTGCATTGAGGGAGCATCTTTCCATCAAAGAAAATGATTTAACTTGCATACATGGAGGGCTGTCATCTTTGAATCATTTACGGGTGATCAATGCCAGGAAGAACCATCTCATGAATTCTGGTATACCAGGGGATATCTTTTCACTGGACGACCTTTTAACAGTGGATTTCAGTCACAACGAACTAAAAGAGGTTCCACAAGAACTAGAAAACGCCAAATCTCTGCTTGTTTTGTCATTATCACACAACAAAATTACATCAATTCCAAACCAGTTATTCATCAATCTCACTGACATGATATACCTTGATCTGAGTGACAATGTGCTTGAAACACTTCCTCCACAACTTAGAAGACTTGTACATCTACAAACATTGATTTTAAACAACAATCCACTGTTACATGCACAACTCAGGCAGCTTCCATCACTTACGCAACTAAGAACACTGAATCTGAGAAATACGCAGAGAGCCATAACCAACATGCCAAACAAACTGGAAGCTTTGGTCAATTTGACAGATCTTGACTTGTCTCACAATGATCTACCAAGAGTACCAGAGCCTGTTTACATGATTTCAAGTTTAAAGAGATTGAATCTAAGTCACAATTCTATTACAGAGTTGTCTTCATTAATAGACTCCTGGACTCAGCTGGAGACCCTGAATTTATCAAGGAACCAACTGATAGCTTTACCTTCATCACTTTGTAAACTGGTCAAGATAAAAAGACTATTTCTGAATGGAAACAACATCAACTTTGAAGGTCTACCAACTGGGATTGGAAAGCTGTATAATTTGGAATTCTTCATGGCCGCATATAATCAGTTGGAGTGCATTCCAGAGGGATTGTGCAGGTGTATAAAGCTCAAGAAACTCATCCTACATACAAACAGACTCTTTACTTTACCTGAGGGCATTCACTTCCTAACAAACCTGGAGgaacttgatgtaaggcacaaccctgaactagagATGCCCCCCAAGCCAGTACCTGAGGAGATGGGCAGTGGATCAGCCTTTTATAATATAGACTTTTCACTGCAGACCCAGCTAAGAATTGCAACAGGTGCCCCTCCTCCTCCCCACCCAGGTCACAAGGACCCATATGCAAGGAAGATGCGTATGCGTGGAAGAAGATACCAAAGCCAGTCGGAAAGTCTGAAAGATATGGTTGAAAATGCAGAAGAAAAGAAAGCCACTGGCAGGAACAGGAAGCTGAGCAAAAAGCAAGATCATGCTGACAACAAAGAAGAAAAAACCCTCAAGGGACGCAAGTGGAATGAAGGTCTTGTCAAACCTAACTTGGATTACCATGACTTTTTTGATGACCACACTGGACAAGAACCTGGTTTATCTGTGTGGCAGATTGAGAACTTTGTACCTGTACGAGTGGATGACGCTCTGTTTGGGAAGTTTTATGAAGCTGATTGCTACATTGTACTGAAGACTGATTATGATGAGACTGATCAGCTATACTGGCAGATTTACTACTGGATTGGTAAAGATTCTTCTCTTGATAAAAAGGCTTGTTCAGCAATCCATGCTGTCAACATGAGGAATTTCCTGGGTGCAGAAACTAGAACAATACGAGAAGAACAAGGAGATGAGTCAGAAGAGTTTCTTGACATCTTTGAACATGAGATTTCTTATGTTGAGGGTGGCACATCAAGTGGCTTCTACTCTGTGGAAGAACCGATCTATGCCACAAGGCTGTTTAGAGTGCTGAAAGGATCAAGAGTACTGCTTGAACCGGTGTCACCAATAGCTGAATCACTGGATCCGACCTTTACTTTTGTCTTGGACGCTGGTCTCAAAATCTTTCTCTGGTCTGGACCCAAGGCCAAGTCAACAACCAAAACAAAAGCAAGGTTATATGCTGAGAAAACCAACAAGAATGAGCGCAAGAACAAAGCTGAGCTGATTATGTGTAGAACTGGAGATGAACCAAGTGATTTTTGGGAATTGTTGGGAGGAAGACCAGATGAAGGACGAATCACAGTTAAACAAGATTATAAGAACCTTCCTAAGTCTCCCATTCTGTACAAAATGGCTCTTGGCCTCGGATATCTTGAGCTGCCACAAGTTGATGTCAATGGTAACAAGCTGGAGCAGAAAGTCATGGACACTAAGAATGTCTACATACTGGACTGTGCATCTGAACTATTTGTTTgGATTGGTCGCAAATCAGCACGACTTGTTCGTGCTGCAGCCATGAAACTTGCCTTGGAACTCAGTTCCATGATTGAAAGGCCATCGTATGCCATAGTAACAAGGGTACTCCAGGGTGCTGAATCACAGCTCTTCAAATCAAAGTTTGTTGGTTGGGATGATGTGCTTGCTATTGATTACACACGCTCAGCTGAAATGGTTTCCAAGCTATCACAGAAATTAGGAACCACGAATATAACAAGAAAAGAAGCACAGGAAAAACTGAAAGAGGTTGCTAAGGTTGATTTATCTGCACTTTTTACAACAAGACAACAACCTATTCCTGATGATGAACAGAAACAATTAGTACACGAGTGGAATGAAGACCTTGATGGCATGGAGTGCTTTGTACTTGAAGGGAGAAAGTTTGTCAGACTACCAGAAGATGAAATTGGTCACTTTCATAGTGGAGACTGCTATGTGTTTTTATGTCGCTATTGGGTTCCTGTTGAAGCACCAGAAGATGATGAGAATGACGAAAATGATGAACCTGTTGAACAAGAAGAAGACTTCCAGTGTGTGGTTTATTTCTGGCAGGGACGAGATGCCAATCAAATGGGCTGGTTAACATTTACGTTTAGTCTTCAGAAGAAGTTTGAATCGCTGTTTGGGGAAAAGTTAGAAGTTGTGAAAACCCAACAGCAACAAGAAAACCCCAAATTCATGGCACATTTCAAAGGCAAATTCATCATTCACACGGGTAACCGTAAGCAGGCCTTACCGCCTGACTACAAACCTAAGGCAGAGTTGTACCACATTAGATCAAATGGAGGGATTTTAGCAAAACGAGTAATACAGgttaagactgatggttcactattaaattCAGAGTTTTGTTATATACTGAAAGTTCCGTTTGAAAACTATTCTGAAGACGGGATCATTTATGTTTGGATTGGAGAAAAAGTGAACGAAACTGATGCAGAACATGCAAAAGAACTTGGCCAAGAGATCTGGGATAGTGGATATACCATTCAAGTCATCAACGAAGGTGAAGAACCAGAGAACTTCTTCTGGGTTGCACTGGGTGGCAAGAAACCTTATGACAAGAATGCAGAGTACATGCAGTATTGCCGTTTGTTCCGATGTTCAAATGACAAAGGCTATTTTTCTGTCTCTGAGAAGTGTACTGATTTCTGTCAGGAGGATTTAGCCAGTGACGACGTCATGATTTTAGACACTGGAAGACTGgtgtatgtgtggttaggtactgactctagcgatgtggaAAGGAAACTAGGAATCAAGAGTGCTCAGCTCTACATGCAACATGTACATCAACTTCAAAGTGGTCCAGTTCGTAAGCTACGTGTGGCCTTTAAAGGAAGAGAAAGCCACATgtttcttggtgttgcagaacaccagatgacgttagacaatgaacacaaagaacgagaagaatga

Transcript

alvinactis_v1_g8739

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q13045	Protein flightless-1 homolog OS=Homo sapiens OX=9606 GN=FLII PE=1 SV=2
F8WK50	Protein flightless-1 homolog OS=Danio rerio OX=7955 GN=flii PE=1 SV=1
Q9JJ28	Protein flightless-1 homolog OS=Mus musculus OX=10090 GN=Flii PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003285 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13855 all species →	LRR_8	Leucine rich repeat	Repeat	Interproscan
PF00626 all species →	Gelsolin	Gelsolin repeat	Domain	Interproscan
PF15134 all species →	DUF4570	Domain of unknown function (DUF4570)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029006 all species →	Homologous_superfamily	ADF-H/Gelsolin-like domain superfamily	Interproscan
IPR007122 all species →	Family	Villin/Gelsolin	Interproscan
IPR032675 all species →	Homologous_superfamily	Leucine-rich repeat domain superfamily	Interproscan
IPR001611 all species →	Repeat	Leucine-rich repeat	Interproscan
IPR007123 all species →	Domain	Gelsolin-like domain	Interproscan
IPR028006 all species →	Family	Centrosomal protein 15-like	Interproscan
IPR003591 all species →	Repeat	Leucine-rich repeat, typical subtype	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11977 all species →	VILLIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0051015 all species →	Molecular Function	actin filament binding	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005546 all species →	Molecular Function	phosphatidylinositol-4,5-bisphosphate binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0008154 all species →	Biological Process	actin polymerization or depolymerization	Interproscan
GO:0015629 all species →	Cellular Component	actin cytoskeleton	Interproscan
GO:0030239 all species →	Biological Process	myofibril assembly	Interproscan
GO:0051014 all species →	Biological Process	actin filament severing	Interproscan
GO:0051016 all species →	Biological Process	barbed-end actin filament capping	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
K27496	FLII; flightless I actin remodeling protein	-	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 Alvinactis idsseensis sp. Nov. 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 Alvinactis idsseensis sp. Nov., 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 →