Gene detail

Detailed information of ayon_s0025.g4.t2 in Acropora yongei

Genomic Location: sc0000025_pilon:113306...132895
NR annotation: XP_029187047.2, protein SON-like isoform X1 [Acropora millepora]
Species Acropora yongei · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ayon_s0025.g4.t2

ATGTGGCCCAGCAAAACGAACTACAACTACTCCGTCAAGCATACGAAATGGATGCGAGGAAACGGCGACGTCCTGTCAGATTTTATGAAGTCCAGTCAAAAGTATGGCTTGGAATATGGAGTGTTTTATAGCGTGCACAATAACTGGTACATGGGAGTAGATAATTACACGACTGGACATCAGCCAACTCAGGAAAAATATCAAAAGGTTGTAGAAGAACAAATGCACGAGTTGTTTAACGAAGACTCTCCATACAAAGATCCTTTTTACATCTGGTTTGACGCTGGTATTGTTCCAAGGCTGAGCCCCAATGTTGGGCCAATAGTACGCAAGTTGGCAGCGAACTCGCTGTGCGACGAATGCCCAACCTTTGCCGGTGATCAAGGCTTGAGGTGGGTTGGAAACGAGAATGCCCTGGCACCTTTACCGCATTGGTACGCTGTACCAAAAGGAAAGTGTTCCATGAAGACAAATAATGGAAACATAATTCAAGGCAACCCTCACGGCGAGCTCTTCTGCCCCGCTAACTGTGACACAGTCATACGCGAGCACTTTTGGTTTTGGGAACCTGATACCGAGTACGCTGTCAAGAGCGTAAGAAGACTTGTTCAAGAGTATTTAACTAGCGTGGGCCACGGCTGTACTTTGCTCCTTAATATTAATCCCGACATCCGTGGGAAAGTACCCGAGCGCGATTTCGCTACTTACAGAAAGCTTGGAAGGGCGATCGAAACGTTGTATAAAGATGAAGTTTCTAAACATTCTAAACAAAAAATGCTTGTTGGAAAAGAGAAGACATGGCATTTCAAGCCCTTCAAGGCATTGAATGGTTCTGTTGTGCTGATGGAAGATGTTGCAGAGTTTGGGCAGTTAGTAATGAAGTATAAATTGAGGATTAAAACTGAAACAAAATGGGTCTCGCTCCCTTATTCGGGAAGTTCCATAGGTCACAAGAGAATTCATCCGTTCCCAAGAGGGCTGGATATGAAAACGATTTCTGCAATTAGCTTGAAGATAATTAAGTTAGTGACTGATCAGGACTCGATAACCCTGAGGGAGAAAACTGGATTACCAGATGAAGTCTCTCCACCGGCATTTCATAATGTAAACACAGTATTGGAAAGCAAAGTATCAAATAATCCTGACAAACCAGTTGCAGACAGTCTTTCATCACAGCAGGTTAAAGTGGCCAAGAGAGCTGGAGGAAAGACTATTGCAGAGTTGACCGCTTTTTGTAAGAAATTACAGGAGGAGAAAGAAGTAAATGATAAGAGCAATGGCAACGTCAATGAAACTGAACAAGAAGAAGCTCAGCCAGTTACTACTCATCATCCATTTTTGGTGAAAGAAAAGCCAGATTTCAGCATACCACCTGTGATATTTCCTGTGAATATGAATAAGCCAAGTCTTCCTTTGGTAGATTCCAGTAAACCTCTTCCACAGCAGTTTCCAGTTTCCTGTGGCAGCAAGCACAGGGAAAAAGAGTCCGGAGATGGTGAAGTGTCTGTTGTAGCAGATGTGGATGGATCAGCGATTCAAGCACAACCACAGCCGGAGGTGTTTGCTCAAGTGCCCGTGGAGAAGTTTGACATCAGTGATCTTGTGGCTAAACGAATGGAGGCCCAGAGACGGCTTCAAGCAGAACCAAATGACATAGAGGCCCTACTCATGCTCCAGGAGGTGCAAATGAAGATGCAAAACTGGTGTCAGTCTAATGTTAAACCAGGGCAGTTCACTGGTGAGCTTGTCAAGAACCTTCTTCCAAAGGAGCATCTACAAGGAGGTTTTCAAGCCTGGGCAAAGAAGGACATGTTCCACAACCTCACACCAGTTAGTGGAGGGATTGGTATGAAGCTGCTGCAGAAGATGGGCTGGAAACCAGGCCAGGTCATTGGCAAGAGAGGGGAAGGGTGTGCGGAACCCATTGCTCTTACTGTCAAGATTGACAGGAAAGGACTCAGTGCAGGAAAGGAAAAAGTCACCAAGAAGGGAACAACTGCAGTGATGGACTTACAAGGAAAGCACCCTGTGTCTGCATTGGCAGAATACTGCAGCAAGAGGAAGTGGCCTCTTCCTGACTACTCCTTGATTTTTGATCAAGGTCCCGCCCACCATAAGCAGTTCCTGTTCAAAGTTTTGGTCAATGGAACGGAGTTCCAACCTGCTGTTGTTTGCGGCAACAAGAAACAGGCCAAAGCTCAGGCAGCCATCTTTGCTCTCAAAGGTCTCGGGCTTATACCTGAGGACGCCGACATTTCCGCACTGTAA

Transcript

ayon_s0025.g4.t2

AACAAACCCTACTTGACTGATCTTCTGTTTGCGAATCGATAATGGAAAGACGAGCGACACTGGAACTCCAATTGGAAAGAAAGAAGTCGCCCTCGTCTTAGCGCTTTAAAAAGCTAATTTATGACAGTTATTGAGCAAAGAAAAAAATTATGGAATTTCTTTCCTTCAATTCCGACTTCATTTGACTTCCTTCTCACGACGGACTGAATAACTCGCGCTTCTGACAAGTGTTCAAACGTGCAAGCAAAACGTATTATTTTGTTCGTCTAGAACAGTTTTAGAAGTACCTAGCCGCATAATTGTTTTACTTGCGTTTTTTATCCACTTTTAGACGCTTGAAACAGTACCTTTATTTTTTTTGTTTGAAACGGTGTTGTGTGAGAGAGAAATTCGTCAAGCAAAGAAAATAAAGTTTTGTATAAGTTTAAATGAATGAAAGTCCGTAATAGTAGAAGGGGACGTTGAGGCTCCGCGGTGCGGTGTCACTGTGATAATTTAGTTGAAGAATGTCTGTTTTTTTCAACTCTCATTAGTTCCTTTGTAAATTGATAGAAAGTTTAAAAATATAAGTTGTGTTACAGTGCAATCTGGGAATTGTCAGGGAAGATAAATTACAATAAAAGTGAGATTTGGAGTTCTTTGCTTTGTTATCTTTGCGTAAGAAACGCAGATGCGTTCAAAATTCCGAAACCCACGGAAACGCAAGCGAGATGGCTGGATTACGAAGTTGGGGCAATCGTGCATTTTAATATGCAAACATTTGACGGCTCGATGAGGGCTGGGCATGTAGTTCCCGCCGATACCTTCGACCCAACGGAGCTGTCAACGGACCAATGGGTGCAAGCAGCTGAAAGTTTTGGCGCTAAATATATCATTTTCACTATCGACCATTTCAGCGGTTTTCTTATGTGGCCCAGCAAAACGAACTACAACTACTCCGTCAAGCATACGAAATGGATGCGAGGAAACGGCGACGTCCTGTCAGATTTTATGAAGTCCAGTCAAAAGTATGGCTTGGAATATGGAGTGTTTTATAGCGTGCACAATAACTGGTACATGGGAGTAGATAATTACACGACTGGACATCAGCCAACTCAGGAAAAATATCAAAAGGTTGTAGAAGAACAAATGCACGAGTTGTTTAACGAAGACTCTCCATACAAAGATCCTTTTTACATCTGGTTTGACGCTGGTATTGTTCCAAGGCTGAGCCCCAATGTTGGGCCAATAGTACGCAAGTTGGCAGCGAACTCGCTGTGCGACGAATGCCCAACCTTTGCCGGTGATCAAGGCTTGAGGTGGGTTGGAAACGAGAATGCCCTGGCACCTTTACCGCATTGGTACGCTGTACCAAAAGGAAAGTGTTCCATGAAGACAAATAATGGAAACATAATTCAAGGCAACCCTCACGGCGAGCTCTTCTGCCCCGCTAACTGTGACACAGTCATACGCGAGCACTTTTGGTTTTGGGAACCTGATACCGAGTACGCTGTCAAGAGCGTAAGAAGACTTGTTCAAGAGTATTTAACTAGCGTGGGCCACGGCTGTACTTTGCTCCTTAATATTAATCCCGACATCCGTGGGAAAGTACCCGAGCGCGATTTCGCTACTTACAGAAAGCTTGGAAGGGCGATCGAAACGTTGTATAAAGATGAAGTTTCTAAACATTCTAAACAAAAAATGCTTGTTGGAAAAGAGAAGACATGGCATTTCAAGCCCTTCAAGGCATTGAATGGTTCTGTTGTGCTGATGGAAGATGTTGCAGAGTTTGGGCAGTTAGTAATGAAGTATAAATTGAGGATTAAAACTGAAACAAAATGGGTCTCGCTCCCTTATTCGGGAAGTTCCATAGGTCACAAGAGAATTCATCCGTTCCCAAGAGGGCTGGATATGAAAACGATTTCTGCAATTAGCTTGAAGATAATTAAGTTAGTGACTGATCAGGACTCGATAACCCTGAGGGAGAAAACTGGATTACCAGATGAAGTCTCTCCACCGGCATTTCATAATGTAAACACAGTATTGGAAAGCAAAGTATCAAATAATCCTGACAAACCAGTTGCAGACAGTCTTTCATCACAGCAGGTTAAAGTGGCCAAGAGAGCTGGAGGAAAGACTATTGCAGAGTTGACCGCTTTTTGTAAGAAATTACAGGAGGAGAAAGAAGTAAATGATAAGAGCAATGGCAACGTCAATGAAACTGAACAAGAAGAAGCTCAGCCAGTTACTACTCATCATCCATTTTTGGTGAAAGAAAAGCCAGATTTCAGCATACCACCTGTGATATTTCCTGTGAATATGAATAAGCCAAGTCTTCCTTTGGTAGATTCCAGTAAACCTCTTCCACAGCAGTTTCCAGTTTCCTGTGGCAGCAAGCACAGGGAAAAAGAGTCCGGAGATGGTGAAGTGTCTGTTGTAGCAGATGTGGATGGATCAGCGATTCAAGCACAACCACAGCCGGAGGTGTTTGCTCAAGTGCCCGTGGAGAAGTTTGACATCAGTGATCTTGTGGCTAAACGAATGGAGGCCCAGAGACGGCTTCAAGCAGAACCAAATGACATAGAGGCCCTACTCATGCTCCAGGAGGTGCAAATGAAGATGCAAAACTGGTGTCAGTCTAATGTTAAACCAGGGCAGTTCACTGGTGAGCTTGTCAAGAACCTTCTTCCAAAGGAGCATCTACAAGGAGGTTTTCAAGCCTGGGCAAAGAAGGACATGTTCCACAACCTCACACCAGTTAGTGGAGGGATTGGTATGAAGCTGCTGCAGAAGATGGGCTGGAAACCAGGCCAGGTCATTGGCAAGAGAGGGGAAGGGTGTGCGGAACCCATTGCTCTTACTGTCAAGATTGACAGGAAAGGACTCAGTGCAGGAAAGGAAAAAGTCACCAAGAAGGGAACAACTGCAGTGATGGACTTACAAGGAAAGCACCCTGTGTCTGCATTGGCAGAATACTGCAGCAAGAGGAAGTGGCCTCTTCCTGACTACTCCTTGATTTTTGATCAAGGTCCCGCCCACCATAAGCAGTTCCTGTTCAAAGTTTTGGTCAATGGAACGGAGTTCCAACCTGCTGTTGTTTGCGGCAACAAGAAACAGGCCAAAGCTCAGGCAGCCATCTTTGCTCTCAAAGGTCTCGGGCTTATACCTGAGGACGCCGACATTTCCGCACTGTAAAACATGAATCTGCAAGTGTCGAATTCAATGCATCCGGTTTTCGAACTTTCCCGCATTTTTGATGTAGAGTTTTAGCTGAGTTCCAAACACTATGGGGACCAGTCATCAGTGTTGGTACTGGTGCTCAACCTCCAGCCACTAAGACGCTGCACGATTTAAATGATGGTTTTATATCATTATCATGGTGTCAGAGGTTATTACCAATTCGTGGACTTGTGACTTCAAAAGCTCTTATCGTATCTTCCCTACTTCTCTTTGCTGAACTAATTTCAAACGTATTTTCTCGTTAATTTTTTGAAGCGACAGCACTAGAAATTGCTGGATATAGTTTTTCACTCAGGCAACTGTTTGAATTGTTCCTGCCTGGTCAATTATCTTTTATTATGGCAATGACGATTTCCTTTGTTCTCTCTTTTTGTTTTTGTGATTGTTTTTTGGTTGAAAAAGTGCAAAAACTTGGACAAAACTTGTTAAGAATGGGAGAAAGGTGTGAAAACATTTCTTTCAAACTCGTCCCTGGATTCATTCGTTTTCAAGGTGTTCTTTTTTCGTCTTTTGTGTCCGACGAGGGCGTCTTCTAAATGTCCCAATCAGTCTTTTTTCACGAGCTTTTCGAATAAATTATGCGCTATTTT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9QX47	Protein SON OS=Mus musculus OX=10090 GN=Son PE=1 SV=2
Q9VHB0	Protein Son OS=Drosophila melanogaster OX=7227 GN=Son PE=1 SV=1
Q6DGZ0	G patch domain-containing protein 11 OS=Danio rerio OX=7955 GN=gpatch11 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003709 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01585 all species →	G-patch	G-patch domain	Family	Interproscan
PF14709 all species →	DND1_DSRM	double strand RNA binding domain from DEAD END PROTEIN 1	Domain	Interproscan
PF01120 all species →	Alpha_L_fucos	Alpha-L-fucosidase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR014720 all species →	Domain	Double-stranded RNA-binding domain	Interproscan
IPR000467 all species →	Domain	G-patch domain	Interproscan
IPR032922 all species →	Family	Protein SON	Interproscan
IPR000933 all species →	Family	Glycoside hydrolase, family 29	Interproscan
IPR017853 all species →	Homologous_superfamily	Glycoside hydrolase superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46528 all species →	PROTEIN SON	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0043484 all species →	Biological Process	regulation of RNA splicing	Interproscan
GO:0048024 all species →	Biological Process	regulation of mRNA splicing, via spliceosome	Interproscan
GO:0051726 all species →	Biological Process	regulation of cell cycle	Interproscan
GO:0004560 all species →	Molecular Function	alpha-L-fucosidase activity	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	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 ayon_s0025.g4.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 Acropora yongei 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 yongei, 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 →