Gene detail

Detailed information of gene16545.t1 in Actinoscyphia liui

Genomic Location: chr4:46542149...46566246
NR annotation: XP_020904264.2, LOW QUALITY PROTEIN: ras GTPase-activating protein 3-like [Exaiptasia diaphana]
Species Actinoscyphia liui · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

gene16545.t1

ATGGCGGCCGGGGTGAGTCTTCAAGAAGTAAGAGTTGAAGAAACATTAAAACTACGGATCGGTGAGGCCAAAAATCTTCTGCCAAGAAAAGAACCTCGTAGCGGTCGCAACTCGTACTGTGTCGTTACGTTAGATCAAGAGCAAGTGTTTCGCACAGCTACGGTGGAAAAAAGTCTAAATCCTTTCTTTGGTGAAGATATACATTTTGAGGTCCCCAGAGATTTCCGTTCCTTATGCTTCTATTTATATGATACAGACTTAATAGGAAAAGACACTGTTCTAGGAAAGGTGGCGATCAAAAAGGAAAATCTTCACAAGTTTTATTCCGATACATGGTTTGATTTGGTACATGTCCATGCTGACACCGAAGTGCAAGGTAGAATCCACCTTGAACTCAAGCATTTTGATGGAATACCAGACTTACAAGAGGAAGAAATATCAAGCACTCCTAAACTTAGAGTCAGAATCTTAGAATGTAGCGATATTTTTGCATGCAGTGGTGGAGGGACATTTTCTGATTCCTTTGTGTCGGTCACTGTCATCAAAACTCCATCAAGGTCAGAAACTAAGAAAACTAGAGTCAAGAAGAGAACTGTCAACCCACAGTTTGAAGAGTCTTTCCTCTTTGATATACCCTATGATGACTTAGAAGATGTCGTTGTAAGGTGTGCTTTATGGAGTTCCTCTTTACTTGGTGAAGATGTATTTTTAGGAGAGGTCAGAATTCCATTGACTAAATGTGACTTGACAACCACACATGAAGGATGGTATTGGTTGGGTCCCAGAACAGACAGACGGTTCTCACTTAGTCAACATAGTATTGGATCTTTGAGGGTTAAAATCTATTACACAGAAGACAATGTGTTTCCTTCTGCTTATTATGACCCTCTAAGAGAAGCAATCCTTAATGTTGATGATCATAAGGATGTCACTACTACACCATCCTTCATTCTGTCAGAAATTGTGAAGGATAAGCTATCTGCTGCTAGATCACTTGTAAGGGTCTTCTCTCATCATGACAGGGTGGTAGAGTTTATCAAATCTATAGTGGACTATGAAGTGGAAACCACTATGGACCCCAATACGCTTTTCAGAGGAAACTCTCTGGCTACCAAGGCAGTTGATGAATTCATGAAGCATGCTGGAATGCAGTATCTCCATGATACCATTAAACATCTTGTTGATGAGATTTTTGAAGAGAGGAAGAGCTGTGAGATAGACCCTTCTAGGCTAAGAGATGGCCAATCATTGGAAACAAACTTGGCCAATTTACAAGGATACGTAGATAAGTTGTTTACAGCGATAACGTGTTCAACCATGGCGTGCCCTAGCATCATGTGTCAAGTGTTCTTTGCGATCAAAGATTCTGCTGAAAGAAAGTTTCCAGATGAATCTGATGTACGCTACACAGCAGTCAGTGGGTTCGTGTTTTTAAGATTCTTTGCACCAGCCATTCTAAATCCTAAATTGTTCCAAATGAGAAGCGAGCATCCGGATCCACTTACATCAAGAACATTAACTCTTGCATCGAAAGCTATCCAGAGTCTGGGAAACCTTGTCAGTTCTGTATTTTGTGGGCAGGTCAAAGAACCTTACATGGAAAGCTTAAAGGCCATGATACTAGATGAGCATCATATCTTAGCTATTAAAGGGTTTCTGGATGCCATTTCGTCTTCAGTGAACGCACATGGACTGCCAGATGATTATCAAATAGTCCTTAAAGAAGGGTATTTAATAAAGCGCGCACAAGGACGATCAAGGTTTGGATTCAAGAATTACAAGAAACGCTTCTTTGTTTTGACTAACAAAAGCTTAACGTACTACAAGGCAAAGGACAAGGGTCTACTATGCAGTATACTAAGTGCAGATATCAAAGGTGTCGAGAAACTAGGGGAGGAGTCATTTAACCTGAAACTGATGTTTCAGATTCTACAGCCTGATAAACCTCTGTACATTCAGGCAAACAACAGTGTGGAGGAACGGGAATGGATGACTGCATTACGTAAACTTTGTCAAAGTAACACAGACAAACTACAGATGTATCATCCAGAGGCTTATGTTTGTGGACGTTGGCTGTGTTGTAAAGAAAGATTAGAAAAGAGCGAAGGATGTCAGCCAGTTACTGAAATTCCACAACCGAAGTGCGTCAATGTAGTCATTGATTGTGACAGAGAAATCGAACGAATCCATTCGCTGTTTTTATTCAACCTTGATAAACTAGATGAACTACAAGTGGAGTGGGAGTCTCGGTACGAGTCTTCAGATGATGATGACCGACATTACTGCAAAGCCAAGCTAGAGTCAATCAACGTTATACGATCACATATCATCAGCTTAGAACAAGAACACAAACAGTACCGTAAAATAACTCATCGATTAACTAGGCATGGGAGCAAAAAGTGTCCCTGGGGCCCTACACACGAGGAGCTCGATCCAATACACAAGGTGACGTTATGA

Transcript

gene16545.t1

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q14644	Ras GTPase-activating protein 3 OS=Homo sapiens OX=9606 GN=RASA3 PE=1 SV=3
Q28013	Ras GTPase-activating protein 3 OS=Bos taurus OX=9913 GN=RASA3 PE=2 SV=1
Q60790	Ras GTPase-activating protein 3 OS=Mus musculus OX=10090 GN=Rasa3 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009942 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00616 all species →	RasGAP	GTPase-activator protein for Ras-like GTPase	Family	Interproscan
PF00779 all species →	BTK	BTK motif	Motif	Interproscan
PF00169 all species →	PH	PH domain	Domain	Interproscan
PF00168 all species →	C2	C2 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001936 all species →	Domain	Ras GTPase-activating domain	Interproscan
IPR000008 all species →	Domain	C2 domain	Interproscan
IPR035892 all species →	Homologous_superfamily	C2 domain superfamily	Interproscan
IPR008936 all species →	Homologous_superfamily	Rho GTPase activation protein	Interproscan
IPR001562 all species →	Conserved_site	Zinc finger, Btk motif	Interproscan
IPR023152 all species →	Conserved_site	Ras GTPase-activating protein, conserved site	Interproscan
IPR001849 all species →	Domain	Pleckstrin homology domain	Interproscan
IPR039360 all species →	Family	Ras GTPase-activating protein	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10194 all species →	RAS GTPASE-ACTIVATING PROTEINS	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0043087 all species →	Biological Process	regulation of GTPase activity	Interproscan
GO:0035556 all species →	Biological Process	intracellular signal transduction	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
K12380	RASA3; Ras GTPase-activating protein 3	-	Ras signaling pathway	ko04014	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 Actinoscyphia liui 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 Actinoscyphia liui, 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 →