Gene detail

Detailed information of g23091.t1 in Acropora digitifera

Genomic Location: chr11Alt:948140...956280
NR annotation: XP_029203982.2, LOW QUALITY PROTEIN: obg-like ATPase 1 [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q7ZU42	Obg-like ATPase 1 OS=Danio rerio OX=7955 GN=ola1 PE=2 SV=1
Q5ZM25	Obg-like ATPase 1 OS=Gallus gallus OX=9031 GN=OLA1 PE=2 SV=1
Q7ZWM6	Obg-like ATPase 1 OS=Xenopus laevis OX=8355 GN=ola1 PE=2 SV=1

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01926 all species →	MMR_HSR1	50S ribosome-binding GTPase	Family	Interproscan
PF06071 all species →	YchF-GTPase_C	Protein of unknown function (DUF933)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004396 all species →	Family	Ribosome-binding ATPase YchF/Obg-like ATPase 1	Interproscan
IPR023192 all species →	Homologous_superfamily	TGS-like domain superfamily	Interproscan
IPR041706 all species →	Domain	YchF, N-terminal	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR031167 all species →	Domain	OBG-type guanine nucleotide-binding (G) domain	Interproscan
IPR012676 all species →	Homologous_superfamily	TGS-like	Interproscan
IPR012675 all species →	Homologous_superfamily	Beta-grasp domain superfamily	Interproscan
IPR006073 all species →	Domain	GTP binding domain	Interproscan
IPR004095 all species →	Domain	TGS	Interproscan
IPR013029 all species →	Domain	YchF, C-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23305 all species →	OBG GTPASE FAMILY	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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
K19788	OLA1; obg-like ATPase 1	-	Chromosome and associated proteins	ko03036	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of g23091.t1 across 39 RNA-seq samples of Acropora digitifera. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

39Samples

39TPM > 0

1Conditions

122.8Max TPM

104.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	39	104.61	122.80

Per sample · hover a bar for the full sample record

Show the sample table (39 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931	122.80
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931	117.94
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931	117.26
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931	116.48
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931	114.70
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931	114.62
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931	113.65
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931	113.49
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931	112.57
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931	111.81
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931	111.23
SRR23047222	Coral branch	Coral branch	adult	not recorded	SRP416931	110.83
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931	110.45
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931	108.79
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931	108.69
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931	107.76
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931	107.47
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931	107.06
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931	105.29
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931	105.25
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931	104.72
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931	104.13
SRR23047210	Coral branch	Coral branch	adult	not recorded	SRP416931	103.07
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931	102.79
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931	102.58
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931	100.54
SRR23047221	Coral branch	Coral branch	adult	not recorded	SRP416931	98.87
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931	98.75
SRR23047235	Coral branch	Coral branch	adult	not recorded	SRP416931	98.19
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931	97.83
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931	97.44
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931	96.98
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931	95.92
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931	94.97
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931	93.54
SRR23047219	Coral branch	Coral branch	adult	not recorded	SRP416931	89.90
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931	89.44
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931	86.34
SRR23047218	Coral branch	Coral branch	adult	not recorded	SRP416931	85.74

Source: CnidoSite RNA-seq expression matrices (ADIGI_TPM, StringTie quantification over 39 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.

Co-expression network

Genes whose expression across the transcriptome samples of Acropora digitifera 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.

Direction	Partners	Most correlated partner	PCC
Positively correlated	8	g5599.t1	0.797195246873699
Negatively correlated	16	g27756.t1	-0.693050160858759

Open this gene in Network Analysis → The network opens with the gene already entered and both directions selected. There you can add up to 9 more genes, switch between the positive and negative network, and export the edge list.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Acropora digitifera, 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.

Peak calls overlapping this gene

Assay	Sample	Peaks	Region

No called peak overlaps this gene in 1 available assay. Either the gene is not near an accessible or marked region in those samples, or it is not represented in the peak caller’s annotation.

Browse the full epigenomic landscape of this species: DNase-seq (DHS).

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.	ready	open →
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 →