Gene detail

Detailed information of ENSTHXP00000060106.1 in Siderastrea radians

Genomic Location: chr3:50595308...50603670
NR annotation: no NCBI-NR hit recorded
Species Siderastrea radians · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

ENSTHXT00000089509

GTCCGACTCATTGGATCGTGCGAATGGAAATTTGTTTGAGAATTTGTGTTTCTAATTAGGCAAATGATATTTTGCGCAGAGCCCCTTTTGAGAAAACGTTTTTCAGGAAATTAGTCTATGATGCTTTGTTTAATACGCAGGTAATTTTTTAAGGTTGGATTTTTCTCACCGACGACAATCGTGTGCGATCTTCTTCCGCCGCGTTCATTTGCTCAGCGTTCTCTACTTTCCTTTTTCCTATTCTTCGACACGAAGCAGATCTAGACGAAAAGTTTTCTAGGGCAGTTAACCAGCAAGACATGGAAAAGTCCTACAACACAAACCGCATTTGTGCTATTTGCGGAGATCGTTCCTCTGGATTTCATTATGGCGTGCAAAGCTGTGAGGGATGCAAGAGCTTCTTCAAGCGAACTGTTCAAAAACAACTCCACTACACATGCGTAGAGAACATGTCATGCCAGATTGACAAGAATAACCGGATCCGGTGCCAGTTTTGCAGGTTTCAGAAGTGTCTGTCCCTGGGCATGCTGAAGGAGGCTGTACGAGAGGACAGGGCACCTGGTGGCAGACCTCGTATAAAGTCACTGATAGGAATGAAAGAGAACGCTGACACGTTTGTCTCGTCGGAGTTAATCACACAGCTGATCCAAGCACGCCCTGACGCCGTACCAAAGAGGAGACCAGACTACATGGACCTTGGTTTTGTGGATATTTGCCCTTTGAACCCGGTGGAAATCGTCATGGAGTTAGTGCTACAGGAGGTAGACCTGATAGTGGCCTGGGCATACAAAGTTCCCGGATTTAGAGAACTGGAGCGAGACGATCAAGCAAGTCTCGTTTCTTCAGCTTTGCTGGAGTTATTGGTCCTCCGTGTGTGCCAGCGGTCCAGTCCACATCAGGGGTCAGTGATGGTAGCCAAAGATGTGCTTCTTAATCCGGAGCACTCATTCAATATGGTCCTGGAGCAATGGTCTTCGCAGTTGGCGTGTTTTGCTTATAAGCTGCAAAGCTTGCAACTTGATATGGCGGAGTTTGCTTGTGTAAATGCCATTATGCTTTTTGAGCAAGAGACGACTTCAGGATTGAAAAATCGAGAGATGGTGGACTTTATTCTAAACCGTTCCCTAGATGCTCTGCGCGACTATATCAAGTGTTCGTATCCCGACAAGCCTAGCCGCTTTGCTCATATTCTGCTAAGACTCCCCACACTAAGAACCGTGTGCTCCAAAATGACAAATGAATGTCTCTTTGCCAAATCTTTTCTCAACCTGGCTGTCCCTCAAGTTTTGTCTTTCTTCGCGGAAGTGAAAATGTAGAAGAGCTGTACATTTTTACTTAAAAGTACAAAACTGTATGAACGAGAAAGCTCAATCATAAACTtaaaccaagagaggatatccTCTCTTGCTTAAACATAAAGTTTTTATAGGATAAAAAATGCCAAAGGAATAAGGAATTTAAGGACTGCTAGGATTGGAGAAAATTGAGAATGGTTTAAAATACGACAAGCTGACTAATAAACTTATTGAGGTTTCAGTAATGATAAAGACCTTAGAATTTTACCATTTCGCTCGCAAAGAAAAGCCCTGAATCAAGTTATGTGACCCCACGTTTTGAGCCTGTAGGTAAAACCCTTCATTATCGAAGTAGCCTTGCTACCTGAATAAAAGAAGTGGTATATTATGTAAGTAGCCTAGTGGACAGGCGGACAGGGCAAGAGAGAAAGCTTAGAGACTTAGCTGTTATGTAAAGTCTGAGATTAAGCAAAGCTTATTAACATGCATTAACATGTTCAGTAGCTAGTGTCAGTAAAGACTCGAAATGAGCAAtgattaagaataaaataaacaaaagttaTTAAAAATGTTTCATCCCTTTTGAGACCAAAAGAGATATGAACATACTTGTGTGATAGGTCAGTCTCAAAATCAAATGTAAGTCTTCGAAATTTTGGTTGATGCGCTTAACACCATAGGAAAAATATTAAGTGATAGAGTAGTACAGATAGAAGTGAAACGGAGTTCTCCCACTTAGAACCTTGGGGGGTAATGGAGACTAATGCTTAAATTGAATAAGATAAAAAACGTTATCATCCTCTTATATGGTGCTTGTGTAGTGGTCATCTAGTTTGAGTTTTGATCTGCAGATGCAGGGTCAGTGGGTCAGCGCATCTTTTCCGTTGTTTCGTTTAGACAAGTTACTTTAATCCACATTCTCcttctctacccaggtgtataaatgcgTACCAGCAAACCGTTGGGTGGGCCCAGGGAGGGGGTGACCCTGCGGTGGACGAAAATTCCTCCCAGGGGAGA

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000188 (this species only) · gene tree & orthology
Transcription factor family	ESR-like · all TF in this species
Transcription factor family	Miscellaneous · all TF in this species
Transcription factor family	NGFIB-like · all TF in this species
Transcription factor family	RXR-like · all TF in this species
Transcription factor family	SF-like · all TF in this species
Transcription factor family	THR-like · all TF in this species
Transcription factor family	GCNF-like · all TF in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00104 all species →	Hormone_recep	Ligand-binding domain of nuclear hormone receptor	Domain	Interproscan
PF00105 all species →	zf-C4	Zinc finger, C4 type (two domains)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001628 all species →	Domain	Zinc finger, nuclear hormone receptor-type	Interproscan
IPR000536 all species →	Domain	Nuclear hormone receptor, ligand-binding domain	Interproscan
IPR001723 all species →	Family	Nuclear hormone receptor	Interproscan
IPR035500 all species →	Homologous_superfamily	Nuclear hormone receptor-like domain superfamily	Interproscan
IPR003070 all species →	Family	Nuclear receptor subfamily 4 group A member 1-3	Interproscan
IPR013088 all species →	Homologous_superfamily	Zinc finger, NHR/GATA-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24085 all species →	NUCLEAR HORMONE RECEPTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0043565 all species →	Molecular Function	sequence-specific DNA binding	Interproscan
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005667 all species →	Cellular Component	transcription regulator complex	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0035259 all species →	Molecular Function	nuclear glucocorticoid receptor binding	Interproscan
GO:0071376 all species →	Biological Process	cellular response to corticotropin-releasing hormone stimulus	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0004879 all species →	Molecular Function	nuclear receptor activity	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 ENSTHXP00000060106.1.

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 Siderastrea radians 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 Siderastrea radians, 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 →