Gene detail

Detailed information of ANN08508-RA in Leptoseris scabra

Genomic Location: Scaffold_6__1_contigs__length_62720928:33441466...33460292
NR annotation: XP_020631211.1, E3 ubiquitin-protein ligase RNF31-like isoform X3 [Orbicella faveolata]
Species Leptoseris scabra · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ANN08508-RA

ATGGCAAATGATGGCTATTCAAGACAAGGAAACTACTCTCCGGGAAATAATTTCTCCGGTACAGTAGTTGAGTCACTACAAAATGCCCCACCTGCTGGTCCAGAAGCTCCAGATATAGTATGGGGTAGTGATTGGCGTAATGCCGTGGATGGTCCCAATGTATTGCAGGGAGGTCGTGCTCCTGTACCAAGGCCTAGAATGGCAGCATACGGTACAGCTGAGGTCATATCACCAATGCAAAGATCACAAGAACAGTCGAATCAATCTGCTGGGCCGCCTGTGTTTATAACAGTAAGAAGAAGAAGTACTCCTCTGGACAGTGTGGGAGGAACTATAGGCCTTAGTGACGAACAGAAAGAGATTTTTTTGAGAGAAAGACGAGCAGCTCTGGTGCGGGAATACAATAATATAACAGATCCTACCTTGCAGAGACTACTGTCGTTGTGTGCTCCACTCTTAAATATGGATGTGGACATTGAGAGGAAGTATGTAGAGCTTGATTTAAGGAGAGTGTTTGAGGCAAACAAGGAGAAATCCCGGTTCCTCCATCTTACTCAAGGATTGGGTATCTTGGAAAAATATGCTTCTAATCTGATCAAAGAAAGCCGTCCTCCATACTGGCGGACTGTGAAATTTACCAGTTCTCTCGTGCAAGTTCATGTTGGGAGATTGATTGGCAGTCGTGACATTCTGTCACAAATGGGATACACTCAAGACATTGCTGATGGTGTCGCCTTTCCTCATAATGTTACTGAGCCTGATGTAAATAGACTTAGACATCTGGCACCAGACTTGTTCTTTGCTAGATATGAAATTGATGCATTGCTTGTAAACAATCATCCATTCTACGAAATGGACCCACCAGTTCCTCGGGATGAAGTCCAACTTCCAGTACTTTTGCGGACAAATTTTCCCCCATCAAGACCGCAGTGTTTCCCAGCAAGAGCATCTAACCCATCGTCCAGATTACCACAACCTGTTATGGTAACTACAGGAGCAAGTAATACATTGGCATCTCCAGGATACCAACAACCTTCACAGCCACCATCATCTCCAACGCCAGCAGCAAGGAGACAAGGAGGCAGAGAACCCAGCAGCCCACCAGAAGGACAGGGAAGTAGGACTACAGCTCATTCCACTCAAGAGCCACAAGCTGCAACTGAGAGTGAGAGTGAAGAGGACTCAGAATATGAAGATGCTGAGGAAGGCATACTCCCATCAAATGAGAGCGCTCAGGCTCAAACAGGCTTTGAGTGTAAAATATGTGGAGAATTGATAGCAACAAAGTTCTGTAAAGACTGCAAAGATACATTTTGTGCACCGTGCGATGGAGTATACCACAAGCATACCTCTCGACAGCGGCATGTTAGAACTGATCTGGTGGCGCCATCAGCAAGTCCCTCTACAGAGCATCCAGTGTTGGGTACTGCTGTTGCTGCTGCTGCTGCTCCTGCTCCTGCTCCTGCTCCTACTGCTGATGCCAGTGCTTCAAGAATGGAACAACAGTCACACAGAGTAGCTTCTCCCATTGCAGCTACAGCTAGTTCTGGTGAAGAATCAAGACCAAGACCTGTGCCTGCTCCAAGACGAAACAAGACACCACTTCCGTCCCTTCAGGGCATGGCTCAGGGTGCTAAAACACCTGAACCAAAAAATGAAGAGCCGCCACCCCCACTCCCCCCAAGAGTTCCATATAACACCCCTCAGAGACAACAGACCACACCCACCAGGCATCCTCAATCTACACCTGTGGCTGGAACCCAGACTGTAGCCTCACAGCCTGTCATATCAACATCAAGTCAAGCTCAGAGCCAAAGCAGAGAAATTCTAAGGCCACCACCCCTTAATCGTCCTCTTATAACTGGAATTGCTCAGAACAGCACTTTGGGAGCAGATGATGAACGAGATAGTAATGTGATAGTCAAAAGTGCGACTCCACCACCCTTACCACCAAAATCGCCAAGTGCTACTCGAACAAAACTGCCCGTTGAATCAAAGGTTACTAGTCACGGACCTATCAGTCCAGAGAGGGGCTCAGCATTATCTTGCCCTTCCTGCTTTTGCTTAAATTCTGGTGATGCAAAGACATGCCTGTTTTGCAAAAAACCACTTCCTGCCAAGACAAACCAGGAGTCTTCAAATCAGTCTGTGCCAACTCGACAGACTGAATCTGTGGAAACAAGGAACTTCCCTCCACCCCTCTGGGCATTGTCTTCAGATCAAAGGGGAGCTGGCAGACAAATGCAGCAGTCACCAGGAAATGTGAACATCAGTACTTCAACTGGTGCAGGTCAATCGACAGTAGATTCTGACAAGTGGGAGTGTGACTATTGTACTTATCATAACCCAAGGACACGCAGGATTTGTGAGATATGTTGCAAAACAAGCAGAAATGATCCATTACCAATAAAAAACACAGAGGTTCCAGCTCCAAACCCTGGTGCACAACAAGCAACACCCAGGGAAACCCAGCGTGTCATCAATATGGCCATGCAAATGAACAGCCAACAAATGCAAACTACACCTGAGCCACCCAAAAAGGCAGATCCACAGAATGTGCAGGCAGCACCAACAGGGATTCCAACCAGAACAGCAGCAGAACTACCCTTGGGAAATAACTTCCCTGCACAGGTTAACCAACAAGCAAGGATGTGGGAGGGCCCAGCTAGACCAACCCAAGCTAATCCACCAGGACCACCTTTAGCAAATGCCTTTCCTGGAATGGGCAGTCCTGGACAGGCAGGGGTACTGAACACTTCTGGAGTGGTTAATCCAGATTTGCCTGTGAGAGGTCCTTTTCCAGGTGTGGTAGGTTACAGTCCAGGAGGAATGGTTGCTCCAGGAGCCATCCCAGAAGTACCTGCAGTAAGAAATCAGTTTATGAGAGATGCTGGTCTACCTTTTGGTCCACAAGGATTTCCTCCTCCACCACCAATGATGTTGCAACCCATAGGACCAATCAGCCCAGAGATACCACCTGAAGCAGGACCATTTCCTTCTCCGATTGGTAATGCTTTTCTTTGGCAGCATGTTGGTCCAGCTGGCTTCCCTCCGGCACCACCCCAATTTGCTGCCTGGACAGCAGTCCCAGATGAAGCTGTGCGAAGACAGCAAGAAGAGATTTACATAGCTGGTTCACGCTATGTTGAGTGGCTGAGGAAAGCAGAAAAAGAAGGTTTTACTGCAGAGGAGTTGAACATAGCATCTGTACTTGGGATTGACGATCCTCAAGGTCCGATTCATTGGCTGCATACTGCTTGGTATGATTTGATTCACAAAGTTATGGGAGAACTGGCCGTGCCAGAAAACTCACAGGAAATTGGAAATGTCAGTCCAGAGGAGGTTCGGGAAGCTTTGATTGAATGTACAGGGGAAGTGACTCAAGCAACAGCTAAATGCATGGAAATCCGCAAGAAAAAGGTGAGGGAACTACAGCAGACGGGTGTGTATGCCAAAACAGATTGCATTACTGCACTGGATACCTCAGACGGAGATACAGAAAAAGCAATTCTTGCTCTTGAGAAAATGGCAATGCGACCAATGCTTCAAAGAGTACTAAACAGTTGCCTTCCAGATCATGCCACTCAGGAGGAGGTGTTCATGGCATTGACAAGGCAGATAAACACTGAAAGCCAGCAGGAAAAAGCCAACTTTGAGGCCATTGTTACTGACAAAGGCCAAAATTTAGATCGGCGTATTCGAGCAGTTTTGGCCGAGAAAAATGTTTCATCGTGGGGAAGGGCAGAAACTGCTGTCAAGTTGATAGACATGAATTACTCTGTTGAGGACTCTATAGAGGCTGCTCGTGAGTGTGGGGATCTTGCGCGTTCTTTGCGTTATCTCCAACAAGATTGCCCGCTCTGCTTGGAAAAAAAACCTATGAGCCAGATGGTTACATTTCTGCACTGCCAGGATCGTGTGTGCCAGGACTGCGTATCACAATACATCACCATAACAATAAAAGACAAAAATATCCTGCACCTTGTATGCCCAGTTTGTTCAAAGCCAGAAAACCTGGATGATGAAGCAGTAGCAACAGAATACTTCAACCATTTTGATATCATGATCCGCGGTCTGGTCGACCAAGAAACACACGACTTGTTTCAAAGGAAACTTCGAGATAGAACACTTATGAAAGAGCCAAACTTCAGATGGTGCTCACATGTAAGTCTAATTTGTTTGCAGTTGAAGCTCTATTAG

Transcript

ANN08508-RA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8IPJ3	E3 ubiquitin-protein ligase lubel OS=Drosophila melanogaster OX=7227 GN=LUBEL PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003060 (this species only) · gene tree & orthology
Ubiquitin family	E3\|E3 activity\|RBR · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16678 all species →	HOIP-UBA	HOIP UBA domain pair	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000315 all species →	Domain	B-box-type zinc finger	Interproscan
IPR036443 all species →	Homologous_superfamily	Zinc finger, RanBP2-type superfamily	Interproscan
IPR001876 all species →	Domain	Zinc finger, RanBP2-type	Interproscan
IPR026254 all species →	Family	E3 ubiquitin-protein ligase RNF31-like	Interproscan
IPR047543 all species →	Domain	E3 ubiquitin-protein ligase RNF31-like, Bbox1 zinc finger	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR047541 all species →	Domain	E3 ubiquitin-protein ligase RNF31-like, modified RING finger, HC subclass	Interproscan
IPR036339 all species →	Homologous_superfamily	PUB-like domain superfamily	Interproscan
IPR032065 all species →	Domain	E3 ubiquitin-protein ligase RNF31, UBA-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16004 all species →	RING FINGER PROTEIN 31-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0004842 all species →	Molecular Function	ubiquitin-protein transferase activity	Interproscan
GO:0036435 all species →	Molecular Function	K48-linked polyubiquitin modification-dependent protein binding	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase activity	Interproscan
GO:0070530 all species →	Molecular Function	K63-linked polyubiquitin modification-dependent protein binding	Interproscan
GO:0071797 all species →	Cellular Component	LUBAC complex	Interproscan
GO:0097039 all species →	Biological Process	protein linear polyubiquitination	Interproscan
GO:1990450 all species →	Molecular Function	linear polyubiquitin 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 ANN08508-RA.

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 Leptoseris scabra 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 Leptoseris scabra, 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 →