Gene detail

Detailed information of ENSKFPP00000035601.1 in Condylactis gigantea

Genomic Location: SCAFFOLD_377:67...5322
NR annotation: XP_031564506.1, chromodomain-helicase-DNA-binding protein 1-like isoform X2 [Actinia tenebrosa]
Species Condylactis gigantea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSKFPT00000038600

ATGGGTCTGGGCAAAACTATTCaagttatttctttcctatcatatttatttcattctcatACTTTGTATGGACCTTTTCTTATTGTGGTTCCTCTTTCTACAATGGCCGCTTGGCAGAGAGAGTTTGCTGCTTGGGCTTCTCATCTAAACATTGTAGTTTATCTCGGCGATGTTACAAGCAGAACAAAGATTCGTGAATATgagttttatcataaaaacaaGAAGTTAAAAATTAATGTACTACTGACAACGTATGAAATTGTTCTCAAAGATAAGCACATCCTAAGTACATTCAACTGGGCTGGTCTGGTTGTTGATGAAGCACATCGTTTGAAGAATGATGATTCCTTGCTATACAAAGTCCTTCAGGAATTCCATACCAACCACAGACTCCTTGTTACTGGTACACCACTACAGAACTCCCTAAAGGAACTGTGGGCACTGCTACACTTCCTCATGCCAGACAGGTTTTTCTGTTGGGAAGAGTTTGAACACACTCATTCTACCCAAGAACAAAAGGACAAGGGTTTTGCTGGTCTCCACAAGGAACTTGAACCTTACTTACTAAGAAGAGTAAAGAAAGATGTAGAGAAATCCCTGCCGGCTAAAGTGGAACAAATTCTAAGGGTGGAGATGTCTTCCATACAAAAACAGTATTACAGGTGGATCTTGACCAAAAACTTCAGGGCTTTGAACAAGGGTTTGAAAGGCAATGCCAATAGCTTCTTGAACATTGTGATGGAGTTAAAGAAGTGTTGCAATCATGCCAGCCTGATACGTCCTATGGAGAATCCACAGTCAACATTTGATCCCCTGCAGGATCTTATTCGAGGGAGTGGTAAGCTGTTTTTATTGGACAAGCTTCTTGTTCGCCTAAAGGAGACAGGTCATCGTGTGTTGATCTTCTCACAAATGGTGCGCATGTTGGATATCTTGGCAGAATACTTGCAGCGGAGAAGATTTCTGTTCCAGCGATTGGATGGTTCGATACGTGGTGATGTGAGAAAGAAGGCTCTGGATCACTTTAATGCTGAAGGCTCCGAGgatttttgtttcttgttgtCAACACGTGCTGGAGGTTTGGGTATTAACCTTGCTACTGCTGATACAGTGATCATTTTCGACTCTGACTGGAATCCACAGAATGACCTCCAGGCGCAGGCCCGTGCACATCGTATTGGACAGCGTAACCAGgtCAACATCTATCGTCTGGTATCCAAAGGAAGTGTTGAAGAAGACATCATTGAGAGAGCTAAACGCAAGATGGTTCTTGACCACCTTGTAATCCAGAGAATGGATACTACAGGAAGAAAAGTGCTCTCCAAGACTCCATCTGCTCCTTCTGCGACAACACCCTTTAACAAGGACGAGCTGGCATCTATCCTCAAGTTTGGAGCTGAAGATTTGTTCAAAGAAGGCGAAGGAGAACAAGACTCCCAATTACAGGAAATGGATATTGATGATATCCTGCGCCGTGCAGAGCTGAGGACATCTGATGACCAGCCACAAACAGTTGGTGAAGAATTGCTCTCTCAGTTTAAGATGGCAAACTTTGCAATCGATGAAGAATCCATCAACACGCCAGAACCTTCAAATTCAAGTGACACTAAAACCTGGGAAGAGATCATCCCTGATAATGTTAGAGAGAAGattgatgaagaagaaaaacagaaacaacaaCTTGCCATGTACTTACCACCTCGTGCCAGGAAAACGGTCAATAAGATGAACTATGACAGTGAGGGAGAGCCAACCAGCAGGAAGAAACcgagcaagaaaaagaagtctATGTCAGatagtgaagatgatggttcggaagaagaagacaaagacaccAAACGGAAGAGAGGACGGCCAAGGACCATCAAGAGAGAGGATATTGAAGGCTTCAATGACTCTGAGATAAGAAAGTTTGTTAAGAGCTACAAGAAGTTTGGCAGACCTCAAACTAGGCTTGATGCTATTGCTTCTGATGCTGAACTAGATGACAAGCCAAAAGAAGACATTGAACGACTGTCTAATGTTCTACATGACGGCTGCTTACGAGCTGTCAAGGAATACAATGAAAAGCTACAGGAGGATCCCAACTTTGATGGTAAAAAGAGAGGTGCTACGCTGAGAATTGGCAATGTTACCATCAACGCACCATCAATCTTGAAACATGAGGAGGAGCTGGAGCCGCTAGCAGCAGCCATCCCTGCCGATACTGCTGAAAGGAAAAAGTAA

Transcript

ENSKFPT00000038600

TCCTATGTTGGGTCCAGTGACAAGTTAAAACTTCGAGATTATCAATTAGATGGACTGAATTGGCTAGTGAATTCTTGGTGTAAAGGCAACTCCACCATCCTTGCAGATGAGATGGGTCTGGGCAAAACTATTCaagttatttctttcctatcatatttatttcattctcatACTTTGTATGGACCTTTTCTTATTGTGGTTCCTCTTTCTACAATGGCCGCTTGGCAGAGAGAGTTTGCTGCTTGGGCTTCTCATCTAAACATTGTAGTTTATCTCGGCGATGTTACAAGCAGAACAAAGATTCGTGAATATgagttttatcataaaaacaaGAAGTTAAAAATTAATGTACTACTGACAACGTATGAAATTGTTCTCAAAGATAAGCACATCCTAAGTACATTCAACTGGGCTGGTCTGGTTGTTGATGAAGCACATCGTTTGAAGAATGATGATTCCTTGCTATACAAAGTCCTTCAGGAATTCCATACCAACCACAGACTCCTTGTTACTGGTACACCACTACAGAACTCCCTAAAGGAACTGTGGGCACTGCTACACTTCCTCATGCCAGACAGGTTTTTCTGTTGGGAAGAGTTTGAACACACTCATTCTACCCAAGAACAAAAGGACAAGGGTTTTGCTGGTCTCCACAAGGAACTTGAACCTTACTTACTAAGAAGAGTAAAGAAAGATGTAGAGAAATCCCTGCCGGCTAAAGTGGAACAAATTCTAAGGGTGGAGATGTCTTCCATACAAAAACAGTATTACAGGTGGATCTTGACCAAAAACTTCAGGGCTTTGAACAAGGGTTTGAAAGGCAATGCCAATAGCTTCTTGAACATTGTGATGGAGTTAAAGAAGTGTTGCAATCATGCCAGCCTGATACGTCCTATGGAGAATCCACAGTCAACATTTGATCCCCTGCAGGATCTTATTCGAGGGAGTGGTAAGCTGTTTTTATTGGACAAGCTTCTTGTTCGCCTAAAGGAGACAGGTCATCGTGTGTTGATCTTCTCACAAATGGTGCGCATGTTGGATATCTTGGCAGAATACTTGCAGCGGAGAAGATTTCTGTTCCAGCGATTGGATGGTTCGATACGTGGTGATGTGAGAAAGAAGGCTCTGGATCACTTTAATGCTGAAGGCTCCGAGgatttttgtttcttgttgtCAACACGTGCTGGAGGTTTGGGTATTAACCTTGCTACTGCTGATACAGTGATCATTTTCGACTCTGACTGGAATCCACAGAATGACCTCCAGGCGCAGGCCCGTGCACATCGTATTGGACAGCGTAACCAGgtCAACATCTATCGTCTGGTATCCAAAGGAAGTGTTGAAGAAGACATCATTGAGAGAGCTAAACGCAAGATGGTTCTTGACCACCTTGTAATCCAGAGAATGGATACTACAGGAAGAAAAGTGCTCTCCAAGACTCCATCTGCTCCTTCTGCGACAACACCCTTTAACAAGGACGAGCTGGCATCTATCCTCAAGTTTGGAGCTGAAGATTTGTTCAAAGAAGGCGAAGGAGAACAAGACTCCCAATTACAGGAAATGGATATTGATGATATCCTGCGCCGTGCAGAGCTGAGGACATCTGATGACCAGCCACAAACAGTTGGTGAAGAATTGCTCTCTCAGTTTAAGATGGCAAACTTTGCAATCGATGAAGAATCCATCAACACGCCAGAACCTTCAAATTCAAGTGACACTAAAACCTGGGAAGAGATCATCCCTGATAATGTTAGAGAGAAGattgatgaagaagaaaaacagaaacaacaaCTTGCCATGTACTTACCACCTCGTGCCAGGAAAACGGTCAATAAGATGAACTATGACAGTGAGGGAGAGCCAACCAGCAGGAAGAAACcgagcaagaaaaagaagtctATGTCAGatagtgaagatgatggttcggaagaagaagacaaagacaccAAACGGAAGAGAGGACGGCCAAGGACCATCAAGAGAGAGGATATTGAAGGCTTCAATGACTCTGAGATAAGAAAGTTTGTTAAGAGCTACAAGAAGTTTGGCAGACCTCAAACTAGGCTTGATGCTATTGCTTCTGATGCTGAACTAGATGACAAGCCAAAAGAAGACATTGAACGACTGTCTAATGTTCTACATGACGGCTGCTTACGAGCTGTCAAGGAATACAATGAAAAGCTACAGGAGGATCCCAACTTTGATGGTAAAAAGAGAGGTGCTACGCTGAGAATTGGCAATGTTACCATCAACGCACCATCAATCTTGAAACATGAGGAGGAGCTGGAGCCGCTAGCAGCAGCCATCCCTGCCGATACTGCTGAAAGGAAAAAGTAAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O14646	Chromodomain-helicase-DNA-binding protein 1 OS=Homo sapiens OX=9606 GN=CHD1 PE=1 SV=2
B6ZLK2	Chromodomain-helicase-DNA-binding protein 1 OS=Gallus gallus OX=9031 GN=CHD1 PE=1 SV=1
P40201	Chromodomain-helicase-DNA-binding protein 1 OS=Mus musculus OX=10090 GN=Chd1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003380 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18375 all species →	CDH1_2_SANT_HL1	CDH1/2 SANT-Helical linker 1	Domain	Interproscan
PF00271 all species →	Helicase_C	Helicase conserved C-terminal domain	Domain	Interproscan
PF00176 all species →	SNF2-rel_dom	SNF2-related domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002464 all species →	Conserved_site	DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site	Interproscan
IPR040793 all species →	Domain	CDH1/2, SANT-Helical linker 1	Interproscan
IPR001650 all species →	Domain	Helicase, C-terminal domain-like	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR038718 all species →	Homologous_superfamily	SNF2-like, N-terminal domain superfamily	Interproscan
IPR014001 all species →	Domain	Helicase superfamily 1/2, ATP-binding domain	Interproscan
IPR049730 all species →	Domain	SNF2/RAD5-like, C-terminal helicase domain	Interproscan
IPR000330 all species →	Domain	SNF2, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45623 all species →	CHROMODOMAIN-HELICASE-DNA-BINDING PROTEIN 3-RELATED-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000785 all species →	Cellular Component	chromatin	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003682 all species →	Molecular Function	chromatin binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006338 all species →	Biological Process	chromatin remodeling	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0034728 all species →	Biological Process	nucleosome organization	Interproscan
GO:0042393 all species →	Molecular Function	histone binding	Interproscan
GO:0140658 all species →	Molecular Function	ATP-dependent chromatin remodeler activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP 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 ENSKFPP00000035601.1.

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 Condylactis gigantea 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 Condylactis gigantea, 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 →