Gene detail

Detailed information of ENSDLIP00000002716.1 in Diadumene lineata

Genomic Location: chr1:18342313...18352918
NR annotation: XP_020908775.1, helicase-like transcription factor isoform X1 [Exaiptasia diaphana]
Species Diadumene lineata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSDLIT00000003136

ATGCCTTTTGGCTATGGTAACCGCTATATTATagacgatgatgacgatgaattAGACCACGAGGTATGTTTTGGCGAATATCGAGTGGGTATTGTTGGTATTCGTTATTACAACGGTACAGTTAACAAGGGAGAAATGGTTTCCCTCAACCGAGAGCCCCGCAATCCGTACGACAAGAACGCCATTCGAGTTGATAATGTCTGTGGGATACAAGTTGGACACATTAAACGAACTATAGCCGTGGCCTTGGCGATCATTATGGACAGAGGTTTAGCGAGACTTGAAGGCACTGTACCATTTGGTCAAAACAATATGTACACTATGCCCTGTGATTTGTCATTTTGGGGTAAACCAGAGAACCAAGATGCTGTGCTACAAATCATGCGTCGACATGGTTTTGTTATGAAAACATATGACAATACACCTTTGCAAGTTGCTGCTGGAAGTGAAGACTACACTAGTTACTCCTATCCCATGCCTAAATCTATCAAGATTTCACAGGAGCAGATGCACAATGAATTGAACAAGCTGTTTGACAAGATGGAGAAAAAGCAGGAAAAAGGAGACCAATTGCTACAGCAAACTGAACCAGCAGAGGCAATTAGGACAACACTCTACCCACATCAGAAACAGTCTCTAGCTTGGATGATATCAAAGGAAAATAACCAAGACCTTCCACCTTTCTGGACtgaaagaacaagaaaaggTCAAAAAGAGTATTTCAATTCTGCAACAAACTTTGCAACTGTCAACAAACCATCTTGTGTTAAAGGTGGTATTCTGGCAGATGACATGGGGCTTGGTAAAACTTTACAGATGATTTCACTTATCTTGACTAACTTCCATGATGGTAAACCACTAGCAACACTAGGTGATGCTGGTACAGGAGTTAGCAAGACTTTGAAGCAGAAGATCAGAAGGCCAAGAAAGAACCAAACAAAGTGTAGACAATCATCAAAAAAGggcagaaaaaataaaaatattgtgagtAGTGATGAAAGCAGTGCAGAGGAAATCtcagatgatgaagatgatcaAGAGGAGCTGGAATTGGTTTTATctgatggtgaagatgatgctGATCAAGAACAGGACTGCAGCCAAGTCATGATTAGAAAAGAGGATCCAGATTTTAAACCTGTAATGGCGACCACTGCTCAGCCTGATGAAAGTAATTTGAGAAGGTCTGGCAGGTCAAGAAAGAAACCAGTTAGATATACAGAgtacaatagtgatgatgatgaagatgaaagCTCTAACTATGCTCCAACTCCTCCAAAAAAgtctaaaacaaaacaacctTCCAAAGCACAAACCAAAACAGCTTCATCAAAGGCATCCAGTAAGAAGACTGTACCAAGGCAAAGCCAACCAGGATTAGTGACAGCTATAGATGCAGACGATGACTGTCAAATACTGGCACCACCTTTACCTAGTCTATCTATTGAtgctactgctgctgctacaTCATCAGGTAACAAAGATGCAGCAGCCTCTTCACAGTCTACAGCTATTAATGACAGCACTACACCAGCATACAAGCCATTAGCAGAACAATCCACAAGCCAGCCTATCATCAGTGGTGGTAGAAGATCTTCTGTACCAAGTGGTCTCCCTAGAACTACTCTTGTGATTTGTCCTCTGTCCGTTTTAAGTAACTGGGAGaaTGAATTTGATACTCATATCCACCCTAACCTGATCAACATCTATACTTACTATGGACAAGACAGAACAAAGGACAAGAAGGTCTTGGAAGAACAAGATGTTGTCTTGACTACTTATCAAACATTATCTGCAGAGTATGCAAAGGGTAAATCTGCACTCAAGGAAGTCAAGTGGTTACGTGTCATCCTTGATGAAGGTCATTGTATCAGAAACCCTAAAGCACAGATGACCAAAGCAGTACATGCGTTAAATGCTGAGCGTCGTTGGATAGTGACTGGCACACCAATACAGAACTCCATGAAGGATTTATGGTCTATTATATGCTATCTAAGACTAGAGCCTTTCTTAGATCGTCAGTGGTGGGTTAGGAGTATTGAGAGACCTATTAGTAACGGAGATAAGAATGCTTTAAGTCGTATCCAAACCCTAATGTATATAATTGCATTACGGCGAACCAAAACTCAGAAGGTTAATGGAAAGCCCATCGTTCAGTTACCAAACCGTGAAGTGTTTATACAACCAGTACAGTTATCACTGGAAGAAAGAAGACTGTATGATTCTATGGCTAATGAAGGCAAACTTGTTATAGGAAAGTATGTGAAGTCAGGTACAGTGCTTAATAACTATGCTGATGTGTTGGCTATTTTAATGAGATTAAGACAGTTGTGTTGTCATCCAGGACTTTGTGCCAGTGCTATGGCTCTTATTTCAGAGTCACTAAACAGTGGAACACCAGAAGAGTTACGCCAAAAGCTGATCTCATCTCTTATGACCATGTTATCCACTGGAGTGGACGAGGAGTGTCCAATCTGTCTTGATTCGCTAGTCAGTCCTGTCATCACACACTGTGCTCATGTATTCTGTCGCCTGTGTATTGAGAATGTGATCAAGAGTGTGAACCATGAGAAGGCAAGGTGTCCATTATGTAGAGGTGATATTAGAAAGGAACAGCTAGTAGAAGTACCTGAGGAGAATGAAGAGAGTATGGTGACTGATGGTGGTGAATGGCAATCTAGTAGCAAGGTGGATTCTCTTATGGCCAAACTAGTTGAGCTTAGATCTTCAGACCCTACCATAAAGAGCATTATCATCTCACAATTCACATCACTGCTCAACCTTGTGGAAGTCCCTCTGCAAGAAAAAGGCTTTTCCTATGTACGTCTAGATGGTTCAATGTCTCAGGCTAGGAGAGCACAGGTTATAGATAAGTTTAGTACATCATCAGCTGCTTCACCCACTATAATGCTGTTGTCATTGAAGGCAGGAGGTGTAGGTCTGAACCTGACAGCAGCAAGTCAAGTCTTCCTACTCGATCCAGCCTGGAATCCTGCAGCTGAGGAACAGTGTTTTGATAGATGTCATAGACTTGGACAAACAAGAAATGTAACCATCACCAAATTTATAGTAAAAGACTCTGTGGAAGAAAGAATGTTGGActtgcaaaagaaaaagagagaatTGATGTCAGAGGCCTTCAAGAAGAAGACATCTGCTGAGGATAGAAGAAAACAGAGGATTGCTGACCTCAAGTCACTCATGGACTTGTAA

Transcript

ENSDLIT00000003136

TTCTGGTATAACAATGCCTTTTGGCTATGGTAACCGCTATATTATagacgatgatgacgatgaattAGACCACGAGGTATGTTTTGGCGAATATCGAGTGGGTATTGTTGGTATTCGTTATTACAACGGTACAGTTAACAAGGGAGAAATGGTTTCCCTCAACCGAGAGCCCCGCAATCCGTACGACAAGAACGCCATTCGAGTTGATAATGTCTGTGGGATACAAGTTGGACACATTAAACGAACTATAGCCGTGGCCTTGGCGATCATTATGGACAGAGGTTTAGCGAGACTTGAAGGCACTGTACCATTTGGTCAAAACAATATGTACACTATGCCCTGTGATTTGTCATTTTGGGGTAAACCAGAGAACCAAGATGCTGTGCTACAAATCATGCGTCGACATGGTTTTGTTATGAAAACATATGACAATACACCTTTGCAAGTTGCTGCTGGAAGTGAAGACTACACTAGTTACTCCTATCCCATGCCTAAATCTATCAAGATTTCACAGGAGCAGATGCACAATGAATTGAACAAGCTGTTTGACAAGATGGAGAAAAAGCAGGAAAAAGGAGACCAATTGCTACAGCAAACTGAACCAGCAGAGGCAATTAGGACAACACTCTACCCACATCAGAAACAGTCTCTAGCTTGGATGATATCAAAGGAAAATAACCAAGACCTTCCACCTTTCTGGACtgaaagaacaagaaaaggTCAAAAAGAGTATTTCAATTCTGCAACAAACTTTGCAACTGTCAACAAACCATCTTGTGTTAAAGGTGGTATTCTGGCAGATGACATGGGGCTTGGTAAAACTTTACAGATGATTTCACTTATCTTGACTAACTTCCATGATGGTAAACCACTAGCAACACTAGGTGATGCTGGTACAGGAGTTAGCAAGACTTTGAAGCAGAAGATCAGAAGGCCAAGAAAGAACCAAACAAAGTGTAGACAATCATCAAAAAAGggcagaaaaaataaaaatattgtgagtAGTGATGAAAGCAGTGCAGAGGAAATCtcagatgatgaagatgatcaAGAGGAGCTGGAATTGGTTTTATctgatggtgaagatgatgctGATCAAGAACAGGACTGCAGCCAAGTCATGATTAGAAAAGAGGATCCAGATTTTAAACCTGTAATGGCGACCACTGCTCAGCCTGATGAAAGTAATTTGAGAAGGTCTGGCAGGTCAAGAAAGAAACCAGTTAGATATACAGAgtacaatagtgatgatgatgaagatgaaagCTCTAACTATGCTCCAACTCCTCCAAAAAAgtctaaaacaaaacaacctTCCAAAGCACAAACCAAAACAGCTTCATCAAAGGCATCCAGTAAGAAGACTGTACCAAGGCAAAGCCAACCAGGATTAGTGACAGCTATAGATGCAGACGATGACTGTCAAATACTGGCACCACCTTTACCTAGTCTATCTATTGAtgctactgctgctgctacaTCATCAGGTAACAAAGATGCAGCAGCCTCTTCACAGTCTACAGCTATTAATGACAGCACTACACCAGCATACAAGCCATTAGCAGAACAATCCACAAGCCAGCCTATCATCAGTGGTGGTAGAAGATCTTCTGTACCAAGTGGTCTCCCTAGAACTACTCTTGTGATTTGTCCTCTGTCCGTTTTAAGTAACTGGGAGaaTGAATTTGATACTCATATCCACCCTAACCTGATCAACATCTATACTTACTATGGACAAGACAGAACAAAGGACAAGAAGGTCTTGGAAGAACAAGATGTTGTCTTGACTACTTATCAAACATTATCTGCAGAGTATGCAAAGGGTAAATCTGCACTCAAGGAAGTCAAGTGGTTACGTGTCATCCTTGATGAAGGTCATTGTATCAGAAACCCTAAAGCACAGATGACCAAAGCAGTACATGCGTTAAATGCTGAGCGTCGTTGGATAGTGACTGGCACACCAATACAGAACTCCATGAAGGATTTATGGTCTATTATATGCTATCTAAGACTAGAGCCTTTCTTAGATCGTCAGTGGTGGGTTAGGAGTATTGAGAGACCTATTAGTAACGGAGATAAGAATGCTTTAAGTCGTATCCAAACCCTAATGTATATAATTGCATTACGGCGAACCAAAACTCAGAAGGTTAATGGAAAGCCCATCGTTCAGTTACCAAACCGTGAAGTGTTTATACAACCAGTACAGTTATCACTGGAAGAAAGAAGACTGTATGATTCTATGGCTAATGAAGGCAAACTTGTTATAGGAAAGTATGTGAAGTCAGGTACAGTGCTTAATAACTATGCTGATGTGTTGGCTATTTTAATGAGATTAAGACAGTTGTGTTGTCATCCAGGACTTTGTGCCAGTGCTATGGCTCTTATTTCAGAGTCACTAAACAGTGGAACACCAGAAGAGTTACGCCAAAAGCTGATCTCATCTCTTATGACCATGTTATCCACTGGAGTGGACGAGGAGTGTCCAATCTGTCTTGATTCGCTAGTCAGTCCTGTCATCACACACTGTGCTCATGTATTCTGTCGCCTGTGTATTGAGAATGTGATCAAGAGTGTGAACCATGAGAAGGCAAGGTGTCCATTATGTAGAGGTGATATTAGAAAGGAACAGCTAGTAGAAGTACCTGAGGAGAATGAAGAGAGTATGGTGACTGATGGTGGTGAATGGCAATCTAGTAGCAAGGTGGATTCTCTTATGGCCAAACTAGTTGAGCTTAGATCTTCAGACCCTACCATAAAGAGCATTATCATCTCACAATTCACATCACTGCTCAACCTTGTGGAAGTCCCTCTGCAAGAAAAAGGCTTTTCCTATGTACGTCTAGATGGTTCAATGTCTCAGGCTAGGAGAGCACAGGTTATAGATAAGTTTAGTACATCATCAGCTGCTTCACCCACTATAATGCTGTTGTCATTGAAGGCAGGAGGTGTAGGTCTGAACCTGACAGCAGCAAGTCAAGTCTTCCTACTCGATCCAGCCTGGAATCCTGCAGCTGAGGAACAGTGTTTTGATAGATGTCATAGACTTGGACAAACAAGAAATGTAACCATCACCAAATTTATAGTAAAAGACTCTGTGGAAGAAAGAATGTTGGActtgcaaaagaaaaagagagaatTGATGTCAGAGGCCTTCAAGAAGAAGACATCTGCTGAGGATAGAAGAAAACAGAGGATTGCTGACCTCAAGTCACTCATGGACTTGTAATATGCTAAGATTGGAAATACAAACAACTTTGTTAGGGCCCAACAAAATTAGTATCCAATGACTGAACCTGCCCGAATATTGCCACTAAAAATATTGTTGAGTTCACTAAACAGCACTAAACAAACGTTAGTGGATGGACACTGTTCAATGAACATTATTGACCAGGGTTTTAGGCCACCCTGCCCCAAGTGAGCTTGGGTGAAGTGTTCATGTGCTAGACAAATCAACCAAGGGAATAAATGTTATTCAACAAGGGAACAATTATGGCTTTAGGGAACATTCTACCGGAAGTCAGGGTCATGTTTTCTAGCACTAACAAAAGGGAGTGTTTTGTGAATCATGACATTTGTTGTGTTCAAATCACACATTGTATTATGGATGTGCTACTAAGATACAGCCAACTTTGTtactgttttaaaaatattataaaagcaTTGTTGCTTGTTTGTATGGTAAgattttgattataaaaattctgtttttgttatgtttacTTGCAACAGCAAATGGGTAGAAAATATggcataaaaaataaaaaaaatggttacATTTCacaatgttttgaaattatttaaaaGATGTGTTTATATTGGAATGAAGtataaattttaaaaggaattgtaaatggaaattttagtgcaaaaaaaaaataaataa

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q14527	Helicase-like transcription factor OS=Homo sapiens OX=9606 GN=HLTF PE=1 SV=2
Q95216	Helicase-like transcription factor OS=Oryctolagus cuniculus OX=9986 GN=HLTF PE=1 SV=1
Q6PCN7	Helicase-like transcription factor OS=Mus musculus OX=10090 GN=Hltf PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001725 (this species only) · gene tree & orthology
Ubiquitin family	E3\|E3 activity RING\|RING · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00097 all species →	zf-C3HC4	Zinc finger, C3HC4 type (RING finger)	Domain	Interproscan
PF08797 all species →	HIRAN	HIRAN domain	Domain	Interproscan
PF00176 all species →	SNF2-rel_dom	SNF2-related domain	Domain	Interproscan
PF00271 all species →	Helicase_C	Helicase conserved C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR018957 all species →	Domain	Zinc finger, C3HC4 RING-type	Interproscan
IPR001650 all species →	Domain	Helicase, C-terminal domain-like	Interproscan
IPR038718 all species →	Homologous_superfamily	SNF2-like, N-terminal domain superfamily	Interproscan
IPR014905 all species →	Domain	HIRAN domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR000330 all species →	Domain	SNF2, N-terminal	Interproscan
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR049730 all species →	Domain	SNF2/RAD5-like, C-terminal helicase domain	Interproscan
IPR014001 all species →	Domain	Helicase superfamily 1/2, ATP-binding domain	Interproscan
IPR050628 all species →	Family	SNF2/RAD54 Helicase and Transcription Factor	Interproscan
IPR017907 all species →	Conserved_site	Zinc finger, RING-type, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45626 all species →	TRANSCRIPTION TERMINATION FACTOR 2-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0016818 all species →	Molecular Function	hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0140658 all species →	Molecular Function	ATP-dependent chromatin remodeler activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0008094 all species →	Molecular Function	ATP-dependent activity, acting on DNA	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
K15711	SMARCA3, HLTF; SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A3	EC:5.6.2. EC:2.3.2.27	DNA repair and recombination proteins	ko03400	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 Diadumene lineata 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 Diadumene lineata, 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 →