Gene detail

Detailed information of ENSTHXP00000052029.1 in Siderastrea radians

Genomic Location: chr6:12400711...12441922
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

ENSTHXT00000078624

ATGAATATTCTCGAAAAAATAGTGAACGAAGTCCAAGCCGAACCGGAAGCAACAATGAGCGCTCGTCCCTATCAAGTTGAACTACTTGAGCGAGCCAAGGAAAGGAATACAATCGTTTGTCTCGGAACAGGAACGGGGAAGACATTCATCAGTGTCATGCAGATTAAGGAACTCGCTCATGAAGTCAGAGAAACCTacaaaaatggcggaaaaagaaCTTTCTTCCTTgttaatacagttCCTCTAGCCATCCAGCAAGCTAAAGTTATTGGTAACCACACAGATTTGAAGGTCAAGTATTATGTTGGAGAGATGGATGTTGACTCCTGGGACAAAAACAAGTGGACAGAAGAAGAGTTCAGTGAAAACAATGTCCTTGTAATGACTGCACAGATATTTCTTGATCTTTTGGAAAAAGATTACGTAAAACTTTCGCAAGTCAATCTCCTGATCTTTGATGAATGCCACCATGCCAAGGGCAACAACCATCCTTATCGGCAGATTATGCAGCATTTTTGTGACTGCAGAAAGGACGATTATCCTAAGGTCATGGGGTTGACAGCCTCTGTGGTGAACAAAAAAGTCAAACCATTGAATATAGAATCTGAAATAAGAGAGCTGGAATGTACCTTGAGGTCAACATGTGAGACAAGTCAAGATGAAAAGATTGAGAAGTTTGCTGCCAAGCCCAAGGAAGAGATCATGACATTCTCAAAAAACTGCATAGACAGCAATTCAGTTAACCTAATTGAGAAACTTCAAGAAGTTCTAAATTCAGGATTGAAGTTTCTTCAAAAATGGAGGGTGCCAGATGATAAGGGACCATTGCGGAATGCACAGTGGTATTCAAAGTCTGCACTGAGGCACCTGAAGGAGTGCCAGGAAACTTTATCAGAAATGGGTCCCTGGGCAGCAGACAGGGTTGCAGGATACTTAATTAAAGACCTGGAAAGGGCATGCTTGTTTCAAGACAGCAAAGAGGGACGGTTGTTTTTTGAGCATAGTGCAGCACAGCTGAGGCAGCTACGGGGTGTGTATCGCAATTGTACATCAACCCCCAGCAGCAATGACCCTGATGGCAATGGACAATGCTATGTCATGCCCAAGCTACAGAAGCTGTTAGGTGTTTTAAAGAAATATGGGAATTCAAAATACACTGAAAGCAATCTCTGTGGCATTGTATTTGTGGAAAGAAGATACACAGCTTTAGTCCTCAGTGAACAGATCAACATCATTGCCAGACTAGATCATGAACTTACCTTCATCAAAAGCAAGTTTGTGGTTGGCCATGGAACTAGTGGAAAAGGTAGCTATTCCAGTGAAACAGAAATGAACTTTAAAAAGCAGGAAAAAGTTCTTAGGCAGTTCAGAAGACATGACTTCAACCTGCTGATTGCAACTTCTGTCGTTGAGGAGGGATTAGATATTCCCGAGTGTAACCTGGTTTGCCGTTTTGATTTTCCAAAGAATTACTGTTCCTATGTGCAGTCAAAGGGCAGAGCCCGTGCAAAAGAATCCAGGTATTACATTCTTGTAGCAGAGGAACTGAAGGTGGAAAAGGAGAGTGAATTGCAGATGATGCATGCAATTGAAAATTTCTTGTTGGAGAAATGCCGTAATCGCACTGAACCTACTGACGAAGAATGTAATGAGGCAGCCGACACACATTTGCTTCCTCCGTACAAACCAGAGAATGGAGTAGGTGCAAGCCTTACCATGAATAACAGTGTCCGCTTCTTATCCAGttttgtcatgttgtgttcttccagttgtgttgcgttgcgttgtgttgcgttgcgttgtgttgcgatttgctgtgtgttgtgttcttgtcttttccctgttgtgttgcgttgtgttgtgttgcgatttgctgtgTGTATTGTTCTTGTCTTctccctgttgtgttgcgttgtgttgtgttgcgatttgctaCTGCATTCGCTTGACATTTTTCTATTATCATTTACCTTCGTTCCAGCACAGGACGGAACAACTCGACCGACAGACAATGGCTTCACCAGCACGACGAGCTCGACCAACGCCACAACTTTAAGCACGACTTCCATCGTGTACTGCTCCAAGTTGCCCAGGGACCAGTTCACTCAGCCCAAGCCAGTGTACAGGATCGAGGAAGATGGTGATGGTTACAGATGTAAACTGGAAATGCCGATTAATTGTCAACTACGTACAACTATCGTTGGTCGTCGAATGGAACGAAAGACCCACGCCAAGATGGCTGCTGCATATTCTGCCTGCATAGAGCTTCGTAAGATTGGCGAACTTGATGATAATTGGTTACCAGTCCCCATCTTATCAGACGAGGAAAGTGATTCAGAGGAAGAAGAAACTGAACCCGGTGgagggaaaagaaagaaagcaggAACAAAGAAACGAAAAAGAGTTTATGAGAGGAAGGTCCCTGAGGCATTCATAGGCAGCTTGATACAGGATAGACAGCCCCAGTACCTCACGGCTATCAGCATACGCATCACCAAACTCACCAGCGGGCAGGATGTTGGTATTAGCGCGCCATTCTTCACAGACAGTGCCTGTCACATGTTTGGCTTGTTGACAAATGCCCCAATTCCAGCGGTGCGACCATTCAAACTGTATCCCGACTATGGAGAAGTGACGGTATCTCTGAAATGTCACAAGTCACAGCTGCATCCCACGCTCACCAGACGCGACTTAACCACTGTTCAGAAGTTCCACTGCTTCTTGTTCAGCCACGTTCTGCGCGAGCGCGTGGAATTAAAGCCCAAGCATGAAGATGGCAGTGCGGATggttattttgttgttttagtgAAGAGTGGAGGACGCCTTGTGGACTGTGATCTCATGGAAGATGCTATGCGATTAGAAGCCTCCCTTGCACGATCATGTGATCAGTCTAGCAGAAATGAGCTCATTAGAGAGGACATGGTAGTTACAAAGAATTACATGGAATCCCGACAAAGGTTTGCTGTTGTGAAGGTACGTCGCGACGTCACTCCACTGTCCCCCTTCCCTGACAGATCCAAAGCCAAAACGTACGAAAGCTACTTCCGGCAGAACTATGGAAAGTCCGTCACTATCAAGGACCAGCCTCTCATTGAAGTGAAAAATATTTCCGATAGAGTCAATTTCTTGGTGGACAGAAAGCAGTCTTCCAAGGGCAAGCATGATGCTATTATCCTTGTTCCGGAGTTGTGTGACGTGGTGCCTGTTCGAGCCTCTCTTTTAAGTGTGTCCTTGATGCTGCCGTCTATTCTGTATCGTCTGAACGCTCTTCTGCTTGTTGGTGATGTCAAGTACGTGATCGCTGGAAAGCCTCACAACACAGACGAATCCAAATTGTCTCCGATTGGTGCTGGTGATGCCAATGATGAAAAGAGTTTGCTTGGCGCTGATAAGAGCAGTGCTGCTGCGGAGGCCATGGAAGtcgatgatgacgacgatgatgatggtgaGGAGTTTCCAGGGCTGTTTTCAGATCTGAGGTCTCTATTTCGTGGCGGCCAAGGTCACACTCGCCTTCCCGACTCGGCCCTTGTGCTTCAGGCCCTGACCACCAACCACAGTGGGGACGCCTTTAACCTGGAGAGACTTGAGATTCTTGGAGATGCGTTCCTGAAGCTGGCAGTGTCGCTTCACCTGTTCTGCACCTATAAAGACAAGGACGAGGGGAAACTCACCCAGCGCAAGGTGAAGCAGATCAGTAATCTGGCATTGTTCCGTGCGGCTGCCAAGAAATCCTTAGCTGGGTGCCAACAGAGCACACAGCTTGCGCGTAACACGTGGTGTCCCACGGGATGCCAATTCAGCGGTGTCTCGCAGGAAAGTATCGCGGGCTCAGATGTTGCAGCCATGGAAGTCGATAACGTGGCTTCCGGTCCTGAAGATACCCAAATGGAAGTTGAAGATACTGGTGGGGCTCAGGGTAGTGGTGACAAGACAGCAAAATGCAACACTCAAGTAATAGCTGATAAGTCTGTTGCCGACAGCATTGAGGCCCTCATAGGAGCGTATTTGATATCCTGTGGGTATGTCGGCGCTCTCCGCCTCATGAGGTTCCTTGGTCTTAAGGTTCTTCCGGAAGATGACGAAACAGACGTGTTTGCCGAGAAAAGCAGGACGGGTTGTTACGCGAGATTTTGGGCTGATCAAGAATCTTCGACAGGGGCTCGCCGTAATGAGGATCTGGTGTCACGCATGGTTTCCGGCTTGGaaacttttgaaaaaaattcaattcaTTACACTTTTCGTTCAAAATTGCATCTGCTAGAGGCTCTAACACACGCCTCGTATCAGGGTAACCGCGTCACGCCGTGTTATCAAAGACTGGAGTTCCTTGGAGATGCTTTGTTGGATTTTCTGGTCACACAACACTTGTACTTCCGTCACGCCAAATTGTCTCCTGGGCAGCTGACCGACATCCGCCAGGCCTTGGTAAATAACAACATCTTTGCGACTATTGCCGTGCAGCACAAGTATAACAAGTATTTGAAACAGATGTCACCGCGGTGGTTTAAAACCATCGAGAATTTTATCACCAGAGTGGAGGATGAGAACGAGGAGCGGAATCAGAATCACTCTAATCCGGTCACTGCAGACCCGTTTATTATCGTATCTGAAAAAGATGAAGAAGGAATTGAGGCGCCCAAGGTCCTGGGTGACATCTTTGAGTCCGTGGCTGGTGCAGTATTTATGGACAGCGGTATGGATTTGACTAAGGTCTGGGGAGTATACTACCGCATGATGAAGCCATACATCGATCACTATTCTGTGAACATTCCGTTCAATCCTATCAGGCGTGTGCACGAGTTGGACAGCAGCTGCGCCTTCAGTGAAGCAAAAACACTACCCGACGGAAAAATCGAACGTACTCTGCGGGTGTACTGGGGAGAGTTTGTTGGTAAGGGTACCAACTCTAAGATTGCCAAGGCAACCGCTGCCAAGCGGGCAGTGCAGGCATGGGAAAGAAGCACCTCGCATGGAACAAGCCCAGTGCATGAGTAA

Transcript

ENSTHXT00000078624

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001051 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04851 all species →	ResIII	Type III restriction enzyme, res subunit	Family	Interproscan
PF03368 all species →	Dicer_dimer	Dicer dimerisation domain	Domain	Interproscan
PF00636 all species →	Ribonuclease_3	Ribonuclease III domain	Family	Interproscan
PF20932 all species →	Dicer_dsRBD	Dicer, dsRNA-binding domain	Domain	Interproscan
PF20930 all species →	Dicer_PBD	Dicer, partner-binding domain	Domain	Interproscan
PF20931 all species →	Dicer_platform	Dicer, platform domain	Domain	Interproscan
PF02170 all species →	PAZ	PAZ domain	Domain	Interproscan
PF00271 all species →	Helicase_C	Helicase conserved C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR038248 all species →	Homologous_superfamily	Dicer dimerisation domain superfamily	Interproscan
IPR003100 all species →	Domain	PAZ domain	Interproscan
IPR001650 all species →	Domain	Helicase, C-terminal domain-like	Interproscan
IPR036085 all species →	Homologous_superfamily	PAZ domain superfamily	Interproscan
IPR006935 all species →	Domain	Helicase/UvrB, N-terminal	Interproscan
IPR036389 all species →	Homologous_superfamily	Ribonuclease III, endonuclease domain superfamily	Interproscan
IPR000999 all species →	Domain	Ribonuclease III domain	Interproscan
IPR005034 all species →	Domain	Dicer dimerisation domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR044441 all species →	Domain	Dicer, double-stranded RNA-binding domain	Interproscan
IPR014001 all species →	Domain	Helicase superfamily 1/2, ATP-binding domain	Interproscan
IPR048513 all species →	Domain	Dicer, partner-binding domain	Interproscan
IPR048512 all species →	Domain	Dicer, platform domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14950 all species →	DICER-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0016787 all species →	Molecular Function	hydrolase activity	Interproscan
GO:0004525 all species →	Molecular Function	ribonuclease III activity	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0016891 all species →	Molecular Function	RNA endonuclease activity, producing 5'-phosphomonoesters	Interproscan
GO:0030422 all species →	Biological Process	siRNA processing	Interproscan
GO:0031054 all species →	Biological Process	pre-miRNA processing	Interproscan
GO:0004530 all species →	Molecular Function	deoxyribonuclease I activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006309 all species →	Biological Process	apoptotic DNA fragmentation	Interproscan
GO:0016442 all species →	Cellular Component	RISC complex	Interproscan
GO:0090501 all species →	Biological Process	obsolete RNA phosphodiester bond hydrolysis	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
K11592	DICER1, DCR1; endoribonuclease Dicer	EC:3.1.26.-	Chromosome and associated proteins	ko03036	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 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 →