Gene detail

Detailed information of acyt_s0092.g7.t4 in Acropora cytherea

Genomic Location: sc0000092_pilon:196176...228526
NR annotation: XP_044183526.1, LOW QUALITY PROTEIN: WD repeat and HMG-box DNA-binding protein 1-like [Acropora millepora]
Species Acropora cytherea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

acyt_s0092.g7.t4

ATGCCGGTTGATCGCAAACCTATGCGATTTGCTCACAGCGAAGGACATACGGACGTGTGTTATGACGAAAATGGCGACTATCTCCTGACTTGTGGTTCAGATGGTGATGTTCGTATTTACAAAGATTTTGATGACAGTGATCCTAAATCATTCCGCGTTGGAGATCATGTCACAGTCTTGGCAGTTAAAAATGAGAAGATAGTAACTGCATCGGATAATGCTGTTCAAGCCTTCACTTTCCCTGAGGGATCACCTGATGGAATCCTGACAAGATTTACTGCACCTGTCAATCACTTGTGTTTCAACCAATCAGGAACTGTTTTGGCTGCAGGGTCAAGTGATTTCAATGTTAAGGTGGTAACAATAGCTGATGGAAGTCAAAGACTTCTCAAAGGGCACACAGCTCCGGTACTCAGTGTTACGATAGATCCAAAGGATCAATACATTGCTTCATCAAGTTGTGATGGTACAGTGAAAATTTGGAAGTTGGAGGATCAGTCATGTTTGACGACACTTTCCATTCTTCCCAAAGTAAATGATTCAAGGATATCCAAGACTAGGTGCCGTCTTTCCTGGCAACCCATGAGTGGCAAGTATTTGGCTGTTCCAGTGGACAAGGGCATAAAGATCTATGAACGCAACAGCTGGGAAAACATCTTTAACTTAGACGATGGTAGTCATTCTGAGCTAGTGTCCATTGTTTCTTGGTCTCCCTGTGGTAATTATATTGCATCAAGTAGCATCTGTGGTGAAATCTTTATCTGGAAGTTGTCTAGCAAAACAGTGATAGAAAGAATAAATCATGAAAGTAAACAGGCTATCTGTGGTTTAGTGTGGAATCCAAGAGGAAACAGGGAATTGGCTTACACAGATAACCAGGGTCAGTTTGGTGTCTGTGAAGGTGTCATATCTAAAGAAGATGAGCAGGAAGATGGCAACAACAATATTACAGCTTCCAACCACTCCATGGATGACAGCCTTTTGGCCACTGCTGTGGATGGCGACAGTGATGATGAACAGCTGATTATTGCAAAGAAAAAACAAAAAAAGTCCAACGCATGgatagatgaggaagcagaggatgacgatgatgatgatgatgaGTTTAAAGATATTCGCAAACTAAAGGCGGTGTTGGCAGCACCATTGGATTTTGGTGGCGGTGAAAATGATGTTGATGGTGATACAGCCAGTGAAGTCTCTGCACAACCGACTGCTAAGAAGGAAGTGATCCACACACCATATGTTCCAACGCTTCAGCCAGCGTTCCAGCCAAGTGCAACCCCAGCTCATCTCATGCACAGATTCATGGTGTGGAATTCAGTTGGAATTGTGCGTTGCCACAAAGAGGACGAAATATCGTCCATTGAGGTTGAATTTCACGACGCCAGCACACATCATCCATTGCACTTAACCAATCACTTAAACCACACCATGGCAGCCTTGTCTTCAACTGCTTTGTTGTTGGCTTGCAAAGTGCAGGATGACATGACCAGCAAGCTAGTTTGTATTCATTTTGGAAGTTGGGACAATTCCAAAGAATGGACTGTGGAAATGCCAGCAGAGGAATCCATTCAGACAGTGGCTATGGGAAGCTCTTTCGTAGCGGTGACAACAAACAAGCGCTTCCTGCGTGTTTTCACTATTGGCGGTGTACAGAGACACGTTTTTAGTCTCCCTGGTCCAGTTGTGTGCACTTCAGGGCGAGACTGTCAGCTTATGGTTGTGTATCATCTGGATAATCCCATTCCCGGAGAACAAGCTTTGGCCGCGAAGTTCCTGGATCTCAGGGAAAACATCATTACGGAGGAGAGGGTTACACTGAGTGAGAAATCCACACTGTCCTGGGTCGGCTTTACAGAAAATTTGACCCCTGTGACTGTTGATTCAGCGGGTGTGGTCAGGATGCTGTCGCGATCATTTGGTTCCTCAATATGGTCACCTGTTTGCGTGACTAAAAGCAATATGAAGAATAAGTCAGACAATTACTGGGTTGTTGGTTTAGACGAAAAGAATCAGCAAATAAGGTGTATTTACTGCAAGGGATCCAGCTACCCACCGACATTGCCACGCCCTGTTCTTGTTCTCTTACCGTTACAGCTGCCCTTGTGTGAAATGGCCACAGAGAAAGGCCAGCTAGAGACAGTGGCTGTGGGAAGCTCTTTCGTAGCGGTGACAACAAACAAACGCTTCTTGCGCGTGTTCACTATTGGCGGTGTACAGAGACACGTTTTTAGTCTCCCTGGTCCAGTTGTGTGCACGTCAGGGCGAGACTGTCAGCTTATGGTTGTGTATCATCTGGATAATCCCATTCCCGGAGAACAAGCTTTGGCCGCAAAGTTCCTGGATCTCAGGGAAAACATCATTACGGAGGAGAGGGTGACACTGAGTGAGAAATCAACACTGTCCTGGGTCGGGTTTACAGAAAATTTGACCCCTGTGACTGTTGATTCAGCGGGTGTGGTCAGGATGCTGTCGCGATCATTTGGTTCCTCAATATGGTCACCTGTTTGCATGACTAAAAGCAATATGAAGAATAAGTCAGACAATTACTGGGTTGTTGGTTTAGACGAAAAGAATCAGCAAATAAGGTGTATTTACTGCAAGGGGTCCAGCTACCCACCGACATTGCCACGCCCTGTTCTTGTTCTCTTACCGTTACAGCTGCCCTTGTGTGAAATGGCCACAGAGAAAGGCCAGCTAGAGGAAGCATACCTTCGCTCGCAACTTGTTTTTGGAGATGAAGAAGGAGACAGTGAATCAGCATCGCGTATCAAAACAGCAGAGATTCAGGGGATTATGAAGTTATTTGCTCTGGCATGCAAGAGTGATAGAGAATTCCGTGCGGTTGAGCTGTGTGAGTTGCTTCCAGATGCCCACTCTGTCAGCTTAGCAATAAAGTATTCAGCACTCACTCGCCGAATGAATCTAGCAAATCGACTCGATGCATTGGCTCGTCAAAAGGCGGGCTTGGAAACGGCAGAGGAGTCTGAGGATGAGTTGCAAAAAGCTGATCCGCCAATCAGACAAGGCCACAAGAGGACGCAGTCCAATAGGCCTGGTCGCTATTGTCGCACCGTTTCAAGACCAATGGAACagagtagagaagaggaagagatggaagaggatgaaatggaagagaatggaatggaagagaatggaatggaTGAAAACTTAGGGGAGGAGTCAGATACACCAAGCGGAGAAGAGAGGAGAAGCCTGGCGAATCTCAACAACCGAGACTCTCGATCCAGTCATGTTGTGAAACAACCCAGACCTCCGCCTTCGCCAGCACCAAGTCACAGCTCTAGTCAAGGTCGCTCCAATCCCTTCAGGGTTGGCAGTCAGAGTAATAAAACAGCAGGAAAGAGTTTCTTTGATAGCGTTGAGGAGGAAAAGAAATCCTTGATGAACCGAAACAAGATATCTCCTGAATCAAAACCAGGACAGAAAAAGAAGGGAAAACAGACAACACTGCTGAAAACACAGTCGAGAAAAGAACAACAAGCAGCTGACGCGATTACGCTATCAGAGGAGGAACAAAAATCGCAAAAGAAGTCCGTTAAAAAAAATGGTTTCAACTTGTGGTACGAGGAAAATAAGGAATCGTTGTTGGAAGCTGAGTCTGCGTTGAGTGATACCGAGCTTATCAAACTTGCCATGCGAAAATGGAAATCACTAGGAGACGGAGAAAAGTCTGAGTGGAATAAGAAGGCAAAGGACACAGCAAACAGCAGAGACGATCGGGATGACTTGAAGAAAAGGAAACGCGAAACATGCGAGGATGAAAATGAAGACACCAGCAACACACTGAATGTGGCCAAAAGGAAGGTTAAAGAAATAACTACATGTGGAACGACAACTAAGTTAGCCGGGTTTGTTTACAAGAAAGACTGA

Transcript

acyt_s0092.g7.t4

GGAGAGAATTCCTAGAGAAACCTTGTCTTGTTTTTTTCCCCTTTTTGTATCTTGGAAAATAGTCGAACATGCCGGTTGATCGCAAACCTATGCGATTTGCTCACAGCGAAGGACATACGGACGTGTGTTATGACGAAAATGGCGACTATCTCCTGACTTGTGGTTCAGATGGTGATGTTCGTATTTACAAAGATTTTGATGACAGTGATCCTAAATCATTCCGCGTTGGAGATCATGTCACAGTCTTGGCAGTTAAAAATGAGAAGATAGTAACTGCATCGGATAATGCTGTTCAAGCCTTCACTTTCCCTGAGGGATCACCTGATGGAATCCTGACAAGATTTACTGCACCTGTCAATCACTTGTGTTTCAACCAATCAGGAACTGTTTTGGCTGCAGGGTCAAGTGATTTCAATGTTAAGGTGGTAACAATAGCTGATGGAAGTCAAAGACTTCTCAAAGGGCACACAGCTCCGGTACTCAGTGTTACGATAGATCCAAAGGATCAATACATTGCTTCATCAAGTTGTGATGGTACAGTGAAAATTTGGAAGTTGGAGGATCAGTCATGTTTGACGACACTTTCCATTCTTCCCAAAGTAAATGATTCAAGGATATCCAAGACTAGGTGCCGTCTTTCCTGGCAACCCATGAGTGGCAAGTATTTGGCTGTTCCAGTGGACAAGGGCATAAAGATCTATGAACGCAACAGCTGGGAAAACATCTTTAACTTAGACGATGGTAGTCATTCTGAGCTAGTGTCCATTGTTTCTTGGTCTCCCTGTGGTAATTATATTGCATCAAGTAGCATCTGTGGTGAAATCTTTATCTGGAAGTTGTCTAGCAAAACAGTGATAGAAAGAATAAATCATGAAAGTAAACAGGCTATCTGTGGTTTAGTGTGGAATCCAAGAGGAAACAGGGAATTGGCTTACACAGATAACCAGGGTCAGTTTGGTGTCTGTGAAGGTGTCATATCTAAAGAAGATGAGCAGGAAGATGGCAACAACAATATTACAGCTTCCAACCACTCCATGGATGACAGCCTTTTGGCCACTGCTGTGGATGGCGACAGTGATGATGAACAGCTGATTATTGCAAAGAAAAAACAAAAAAAGTCCAACGCATGgatagatgaggaagcagaggatgacgatgatgatgatgatgaGTTTAAAGATATTCGCAAACTAAAGGCGGTGTTGGCAGCACCATTGGATTTTGGTGGCGGTGAAAATGATGTTGATGGTGATACAGCCAGTGAAGTCTCTGCACAACCGACTGCTAAGAAGGAAGTGATCCACACACCATATGTTCCAACGCTTCAGCCAGCGTTCCAGCCAAGTGCAACCCCAGCTCATCTCATGCACAGATTCATGGTGTGGAATTCAGTTGGAATTGTGCGTTGCCACAAAGAGGACGAAATATCGTCCATTGAGGTTGAATTTCACGACGCCAGCACACATCATCCATTGCACTTAACCAATCACTTAAACCACACCATGGCAGCCTTGTCTTCAACTGCTTTGTTGTTGGCTTGCAAAGTGCAGGATGACATGACCAGCAAGCTAGTTTGTATTCATTTTGGAAGTTGGGACAATTCCAAAGAATGGACTGTGGAAATGCCAGCAGAGGAATCCATTCAGACAGTGGCTATGGGAAGCTCTTTCGTAGCGGTGACAACAAACAAGCGCTTCCTGCGTGTTTTCACTATTGGCGGTGTACAGAGACACGTTTTTAGTCTCCCTGGTCCAGTTGTGTGCACTTCAGGGCGAGACTGTCAGCTTATGGTTGTGTATCATCTGGATAATCCCATTCCCGGAGAACAAGCTTTGGCCGCGAAGTTCCTGGATCTCAGGGAAAACATCATTACGGAGGAGAGGGTTACACTGAGTGAGAAATCCACACTGTCCTGGGTCGGCTTTACAGAAAATTTGACCCCTGTGACTGTTGATTCAGCGGGTGTGGTCAGGATGCTGTCGCGATCATTTGGTTCCTCAATATGGTCACCTGTTTGCGTGACTAAAAGCAATATGAAGAATAAGTCAGACAATTACTGGGTTGTTGGTTTAGACGAAAAGAATCAGCAAATAAGGTGTATTTACTGCAAGGGATCCAGCTACCCACCGACATTGCCACGCCCTGTTCTTGTTCTCTTACCGTTACAGCTGCCCTTGTGTGAAATGGCCACAGAGAAAGGCCAGCTAGAGACAGTGGCTGTGGGAAGCTCTTTCGTAGCGGTGACAACAAACAAACGCTTCTTGCGCGTGTTCACTATTGGCGGTGTACAGAGACACGTTTTTAGTCTCCCTGGTCCAGTTGTGTGCACGTCAGGGCGAGACTGTCAGCTTATGGTTGTGTATCATCTGGATAATCCCATTCCCGGAGAACAAGCTTTGGCCGCAAAGTTCCTGGATCTCAGGGAAAACATCATTACGGAGGAGAGGGTGACACTGAGTGAGAAATCAACACTGTCCTGGGTCGGGTTTACAGAAAATTTGACCCCTGTGACTGTTGATTCAGCGGGTGTGGTCAGGATGCTGTCGCGATCATTTGGTTCCTCAATATGGTCACCTGTTTGCATGACTAAAAGCAATATGAAGAATAAGTCAGACAATTACTGGGTTGTTGGTTTAGACGAAAAGAATCAGCAAATAAGGTGTATTTACTGCAAGGGGTCCAGCTACCCACCGACATTGCCACGCCCTGTTCTTGTTCTCTTACCGTTACAGCTGCCCTTGTGTGAAATGGCCACAGAGAAAGGCCAGCTAGAGGAAGCATACCTTCGCTCGCAACTTGTTTTTGGAGATGAAGAAGGAGACAGTGAATCAGCATCGCGTATCAAAACAGCAGAGATTCAGGGGATTATGAAGTTATTTGCTCTGGCATGCAAGAGTGATAGAGAATTCCGTGCGGTTGAGCTGTGTGAGTTGCTTCCAGATGCCCACTCTGTCAGCTTAGCAATAAAGTATTCAGCACTCACTCGCCGAATGAATCTAGCAAATCGACTCGATGCATTGGCTCGTCAAAAGGCGGGCTTGGAAACGGCAGAGGAGTCTGAGGATGAGTTGCAAAAAGCTGATCCGCCAATCAGACAAGGCCACAAGAGGACGCAGTCCAATAGGCCTGGTCGCTATTGTCGCACCGTTTCAAGACCAATGGAACagagtagagaagaggaagagatggaagaggatgaaatggaagagaatggaatggaagagaatggaatggaTGAAAACTTAGGGGAGGAGTCAGATACACCAAGCGGAGAAGAGAGGAGAAGCCTGGCGAATCTCAACAACCGAGACTCTCGATCCAGTCATGTTGTGAAACAACCCAGACCTCCGCCTTCGCCAGCACCAAGTCACAGCTCTAGTCAAGGTCGCTCCAATCCCTTCAGGGTTGGCAGTCAGAGTAATAAAACAGCAGGAAAGAGTTTCTTTGATAGCGTTGAGGAGGAAAAGAAATCCTTGATGAACCGAAACAAGATATCTCCTGAATCAAAACCAGGACAGAAAAAGAAGGGAAAACAGACAACACTGCTGAAAACACAGTCGAGAAAAGAACAACAAGCAGCTGACGCGATTACGCTATCAGAGGAGGAACAAAAATCGCAAAAGAAGTCCGTTAAAAAAAATGGTTTCAACTTGTGGTACGAGGAAAATAAGGAATCGTTGTTGGAAGCTGAGTCTGCGTTGAGTGATACCGAGCTTATCAAACTTGCCATGCGAAAATGGAAATCACTAGGAGACGGAGAAAAGTCTGAGTGGAATAAGAAGGCAAAGGACACAGCAAACAGCAGAGACGATCGGGATGACTTGAAGAAAAGGAAACGCGAAACATGCGAGGATGAAAATGAAGACACCAGCAACACACTGAATGTGGCCAAAAGGAAGGTTAAAGAAATAACTACATGTGGAACGACAACTAAGTTAGCCGGGTTTGTTTACAAGAAAGACTGACCAATATTAATTATAACTACTGAGTAAATCGTTGTGTTTTTGCTGTAAGCTGCAGTCCACTTCAACCCGACCATCCAGGGAAAAATTGTTTGTCGAATGTTGAACGATTTGTGAAGGCAGGCGTTTGATCTGGTCATAGGTAGTACAAGGAGATTTGCTCTCCTAGCTACGCCACGTGCAAGGACGAAAAAGACAAGGGAATTTACTGGATCCCAGTCCTAGCTACACGTTCAGTTGAAATTAAGTATCTATGGGAAGTTGATTCCATCGGACAGAAGTCCGAACATTAACATTGAAGCTTCCATGACTTCCATGTAGTGTTTGATGCCGAACTAGATAATATTAACGTGCGTATTCCGTCTGATTCTCAGTGATGTCAGATTAAAAGACTACCTGAATT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P59328	WD repeat and HMG-box DNA-binding protein 1 OS=Mus musculus OX=10090 GN=Wdhd1 PE=1 SV=2
O13046	WD repeat and HMG-box DNA-binding protein 1 OS=Xenopus laevis OX=8355 GN=wdhd1 PE=1 SV=1
O75717	WD repeat and HMG-box DNA-binding protein 1 OS=Homo sapiens OX=9606 GN=WDHD1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003434 (this species only) · gene tree & orthology
Transcription factor family	HMG · all TF in this species
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12894 all species →	ANAPC4_WD40	Anaphase-promoting complex subunit 4 WD40 domain	Repeat	Interproscan
PF20946 all species →	Ctf4_C	DNA polymerase alpha-binding protein Ctf4, C-terminal domain	Domain	Interproscan
PF00505 all species →	HMG_box	HMG (high mobility group) box	Domain	Interproscan
PF12341 all species →	Mcl1_mid	Minichromosome loss protein, Mcl1, middle region	Repeat	Interproscan
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR024977 all species →	Domain	Anaphase-promoting complex subunit 4-like, WD40 domain	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR048591 all species →	Domain	DNA polymerase alpha-binding protein Ctf4-like, C-terminal domain	Interproscan
IPR009071 all species →	Domain	High mobility group box domain	Interproscan
IPR022100 all species →	Domain	Minichromosome loss protein Mcl1, middle region	Interproscan
IPR036910 all species →	Homologous_superfamily	High mobility group box domain superfamily	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19932 all species →	WD REPEAT AND HMG-BOX DNA BINDING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000278 all species →	Biological Process	mitotic cell cycle	Interproscan
GO:0003682 all species →	Molecular Function	chromatin binding	Interproscan
GO:0006261 all species →	Biological Process	DNA-templated DNA replication	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0043596 all species →	Cellular Component	nuclear replication fork	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K11274	WDHD1, CTF4; chromosome transmission fidelity protein 4	-	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 Acropora cytherea 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 Acropora cytherea, 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 →