Gene detail

Detailed information of ANN19514-RA in Leptoseris scabra

Genomic Location: Scaffold_9__1_contigs__length_46255593:36883176...36899099
NR annotation: KAJ7340177.1, BRCA1-associated ATM activator 1 [Desmophyllum pertusum]
Species Leptoseris scabra · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ANN19514-RA

ATGACTGAGCTTGAGAAGAGGAAATCTTGGACAGAAGTTCTGCCTTTCTTGTTCAATTTACTCGTGGAAAACGCTGATGGAATTATAGATGACACGAGTTTGGAAAGAATACTTGAGTGGTTAAAACATGTTTGCAAAAACGAACAACAACTACAAAAACTCTTACAATGTGGAACTGTGGAGTTCTTGGCGAACGAGAAAGTTTTCGCAAATCCCGAATCGTCGGCGTTCTTTCTAAGGCTCTTTGGTTTTCTTGCTTCAAGAACAGAAGTGTTTAATTCTTTGTGTGCCAGAGACAGAGATTTTTTGCCTAAGTTCCTCGACAAGCCAAGGAATGAACCAAACCTTTGGAACAAGGGTGTAGTAAGAAATGGATATTTTCAAGCCCTGATTTCTCTGACAGAGCACAGAGATGGCATTCTGTGGATGGAAAGTACAGGTTACATAGATTGTGCATGGGATTGCATTTCTGATAGGAGCATGTTTGTTGCCAATTCAGCAAGACGTTTGATTGCAAAGTATCTTATAAAACAGAGTAACTGGGTGCTTTTGCAAGACCCTGAAGACACATTTCATAGCATCTTGGATGACAAGAATCTTGCAGCCATAACTGAAAGGTTGAGATCAATGTTATCTCAGGAGTCCTCCACTTTCCCACTTTGTGCAATAGCTGTGATTGAGATAACAAGGATCTTACTCTGTGAGGATTCCATCACTGGGAAAAGGCTTCTTGAAGAAAGCAGAATATTTCCTGAGTGCTTGAAGGTGTTAAGAGCTGGAGATGCAACAGTATGCCAGAGACTAGTTGATGTGGTGTGTGAAATAGCAAAGAATACAAGTACATGGACGCTAGATTGGGACAGGCTAATTTGTACAGAGGAATCGAGTGCTTCAAGCATTCTACTTCAGTCATGTGCAGATCTTTTTAAGAAGGGCCTTGTTTCAGCAGGCCTTGAACTTATTTCTGGTTTATGCTTTTGTCAAGAAAGTTCCAGCAATTTCCCACATCACTGGCTGGAAGTACTGTTTCGCCTTGTGGAGTTGCCATTTGAGTTGGCGTTCAGTCCAGCATGTCACAGCACTGAAAATTTGCATAATGGCTGCCACATTAATGGAAGTGAAAACTTACATGTCGGACTTGTTGATGGCCTAATGGCTCATGACGAGAAATGTGAATCCTCTATGCGACAGCTTCAGAGTATAATGTCCCCTTGGATCAAAGAAAATCATTCACAAACTCAAGTTATTTGTCAAACGCTAGCAGCAGCACAACAGCTCACACAACAGGCTTCTTCAACACATGGTTCTTATGTGTTGTGTTGGATAAAGCATAGCCTCAACCTTCTCCAGAACTGTGTTGATCCGACCCAGCAATGTATAGTGAAGCTTCATGGCAACCAGAAAGTACTCAAAGCTTCTTTGGAATTCATCACCAGTTTCGCTGAAGTTCAAAGATCAAGAGATGTCCTTGGATCCACAGATCCCTTCTCAGTTGACCAACTGTTTGACGACCTGGTCAAAAGATTACTTCAAGTCATTGAGAATTCCGATTCCAGTGCAACTATGAATATGCACAAGCAAAAACCAAAACACCGCCTTCATCAGACTCCTTTTGATATAACTTTGGTGGTTAAAGATGGAACAGAGTTTAAGGCTCACAGGCAAGCTCTTTCAGAAGCCAGTTCTTTCTTCGAAAAACTTCTCAAGAGCAATATGAAGGAAAGCAAAGAAGGAGTTATTCGCCTGGAGATGCTAACCGAACCTCAAATGGCAGATGTGCTGGAATTTATATACACTGGCAACATTCGGATTTCGAGTCAAGAGAATGCTGAGAACCTGATCGCAGTGGCTGATTATCTGTTTTTATCCAACCTCAAACATATCGCCGGAAAATGTCTAGAGCACAACTTGACCACTTTGAATTGCTTTTCTACCCTTCACTTGGCAGAAAAATATCTGTGTGATGAGCTAATCGACAGCTCCTTGAAATTCATGTGCTCAAATTTTACCGCCATCAAGGAATCTGATCACTTCATGAATTTGCCGAGTAATGAAGTTGAAAAATTGATTTCAAGTGATGCGATTGCCATAACGGCAGAGGAAGATGTTTTTAAAGTGATCCTAAGGTGGATCGATCACAACCAGAGCGAACGAAGCGTGAAATTCGGCGAGCTGTTTCGTCACGTCCGACTTACTTTTATATTACGTGACTTTTTAATTAGCGATGTCGTGACCAATGATCTTGTGACAGGTAACGACGACTGTCTTGATCGCGTGACTGAGGCGTTAGCGTGGATTGACAGAGGCACTGATCGTGATGTTCCACGGCCAGATTCTCCGAGGAAGGCTCTTGAGATGTGTGTTGTGGCTGGTTGTGGGAAGACAGAGCCTTTGCAAACGTTTTTCTACGTACCTGAAAAAGATGAGTTTTATCGCTTACCCAAGAGGCCCAGAACTGATCTTGACCGCCGACCAGAGCATGTATTTTCATGCCGAGGTCGGCTGTTCGTTGTTTCCCAAGACATTGACAATGCGCAATACTATGACCCGGAAGCAAATCTCTGGCTGCCCGCTCCGTGGACGAATAAAATGGCTGTAAACCTTGAACTTGGTCATTTGAGTCAACGCCTTTTAAGTTCGGTATTGGTTGTAGAAAACTTTATCTGTTTCGTTCTAGAAAGAGTAGCACTTGGCTCAACTTGGCTTTGGAAATACGACCTTGATGCTGATTCGTTTGTTTCAACGATGCCTCAGCTCTGGCTGAAGATAGTGCATTCTTGCTTAGTCGTCGTTGAGAAGTTCATATACATTATTGGTGGAGGGATCAACCGAAGTGGTTCTTTTATTGATGAAGACTTCGTTGCACTCAAGTTATGTTCGAGATTTGACATCAAGGAAAACACGGAGGAAGCCAGAGCACAATTAAAACAATACAGATTTCATGCCATGGCCTCTGCTAGTAAAGGAAAAATTTTTGTTGTTGGGGGATACACTGGTTTTCAGTGCCCTGCTAAAACTTGCGAAGTGTACGACCTAGAGACAGACGAATGGCATTTCTTTGCCAATTTAATGGTTCCACGTTCTCGTGGTAACATGTTGGTGCTTGATGAAACGTTATACGTGCTCTGTGGACTTAATCACAACTCTGAGGATGAATGGACTGTGGAGTTCTTCAACCAAGAAGAAAATATTTGGAATGTGATGTCTAGTTCCTTGAAGACGCTAGGTAAAGTACTCGGCGCCGCAAGACCAGAATTTATAACGGAGCTGTTCAGCAGTGATAAAGGAAAGAAAGACACCACCAGAAAACGTGTTCGACTCGACAGCGATGCTTCAGGCGAAGATGTTCCTCAGGTGATGTCTATAAAGGCTGCAAACTGCGAGAAATTAGCTTTCGTTCTGTTTCGGAGATTACGGGACTCAAGATGGGAAGTGAGAGACTCGACTTTAGAATTTATTGCCTTTCTCTTGCTGATTAACAACGATTCTGTTCACGATTTTCTCTGTGGACGCAGCATACCTCTGATAGTGTGGAATGCCACTGATGATGCCGACAGTTACGTCCGTGCCTCTGCTCTTCATGTGATTGGTTCCCTTACCTGTCAATCACAGCTTTGGGTATCTCTACTTAAAACTGGACACGTGAATGAGGAGGGCATTTTGGAGAAGCTTTCTTCTGTTCTCGAGAAGGATGACGAGGCGTTCCCGCGGCGTAGAGCCATGGAATGTTTCACACTGTGGATACAAACACGGCATCCAATGGCGGACAGAATTCTTCGCTCTGACGAGTTTAGCCTGGGAGATGATGAAAATGCGTCGACGAAAACAAGCACCACGGACACATCGTACAGCGAAGGAATTCAGAGTTCCAATGATGTTCAGAATTTAAGCGTCCTAAGTCTTCCTGAAGCTGTGAAAACATCTCCGGGTGTTGGTATTGCCCGAAGTGTGTGCCACGCTTGCCAGGATTTTGACTGGGAAGTTAAACTGCGGGGACTGGAGTTTTGGGAGGCGGTTATAAGTTTCTTCACCGGGTCCAAAACTAAGAAGGAAAGCGCAAACACAGGAGATGCTAAGTCCTATTCTGAAGAAGCTTCTGCATGCTGCAATGACAGTAAACGTAAATGTGCGAAGACGGGTAAAATTCAACAGCTTTTTCAGGTGCTTTTTATCATGGGAGCTCTTAATATCTTGAGCGAAGCTTTAAACGATTGTGACCACATGGTCTGCGAGAAAGCTCTTGAAATATTAGCTCTTTTGCAGGGTTTTGGAGATCCTGAAAACTGTAACTTAGAAAAATGCATCAAAACAGCATTGCATTTCCAAGAATCACTTGGCAAAGGGTTTGGTTTGGAGGAGTTTAAGAGCATTTTACAAGTAACTGATTTTCCCGCTCTGACCCAGTCAACGGAGGCAGCAGATAGCGCGGTAAGATCCGACCCAGTCTCACTAATAGAGGACATTCTGATGGCAGCAACACATCGAGACGAGAATTTACTGGATTGCTACTAA

Transcript

ANN19514-RA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q1RLU1	Integrator complex assembly factor BRAT1 OS=Danio rerio OX=7955 GN=brat1 PE=2 SV=1
Q3UQV5	Kelch repeat and BTB domain-containing protein 8 OS=Mus musculus OX=10090 GN=Kbtbd8 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003226 (this species only) · gene tree & orthology
Ubiquitin family	E3\|E3 adaptor Cullin RING\|BTB · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07707 all species →	BACK	BTB And C-terminal Kelch	Domain	Interproscan
PF00651 all species →	BTB	BTB/POZ domain	Domain	Interproscan
PF01344 all species →	Kelch_1	Kelch motif	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR038904 all species →	Family	BRCA1-associated ATM activator 1	Interproscan
IPR011333 all species →	Homologous_superfamily	SKP1/BTB/POZ domain superfamily	Interproscan
IPR015915 all species →	Homologous_superfamily	Kelch-type beta propeller	Interproscan
IPR011989 all species →	Homologous_superfamily	Armadillo-like helical	Interproscan
IPR011705 all species →	Domain	BTB/Kelch-associated	Interproscan
IPR006652 all species →	Repeat	Kelch repeat type 1	Interproscan
IPR000210 all species →	Domain	BTB/POZ domain	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21331 all species →	BRCA1-ASSOCIATED ATM ACTIVATOR 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001934 all species →	Biological Process	positive regulation of protein phosphorylation	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006974 all species →	Biological Process	DNA damage response	Interproscan
GO:0008283 all species →	Biological Process	cell population proliferation	Interproscan
GO:0005515 all species →	Molecular Function	protein 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 ANN19514-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 →