Detailed information of g10312.t1 in Acropora digitifera

Genomic Location: chr5Alt:1449683...1465190
NR annotation: XP_029212276.2, NAD(P) transhydrogenase, mitochondrial-like [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 accessionDescription
P11024NAD(P) transhydrogenase, mitochondrial OS=Bos taurus OX=9913 GN=NNT PE=1 SV=3
W5PFI3NAD(P) transhydrogenase, mitochondrial OS=Ovis aries OX=9940 GN=NNT PE=1 SV=2
Q13423NAD(P) transhydrogenase, mitochondrial OS=Homo sapiens OX=9606 GN=NNT PE=1 SV=3
 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF01262
all species →		AlaDh_PNT_CAlanine dehydrogenase/PNT, C-terminal domainDomainInterproscan
PF02233
all species →		PNTBNAD(P) transhydrogenase beta subunitFamilyInterproscan
PF05222
all species →		AlaDh_PNT_NAlanine dehydrogenase/PNT, N-terminal domainDomainInterproscan
PF12769
all species →		PNTB_4TM4TM region of pyridine nucleotide transhydrogenase, mitochFamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR026255
all species →		FamilyNAD(P) transhydrogenase, alpha subunitInterproscan
IPR007698
all species →		DomainAlanine dehydrogenase/pyridine nucleotide transhydrogenase, NAD(H)-binding domainInterproscan
IPR036291
all species →		Homologous_superfamilyNAD(P)-binding domain superfamilyInterproscan
IPR007886
all species →		DomainAlanine dehydrogenase/pyridine nucleotide transhydrogenase, N-terminalInterproscan
IPR034300
all species →		DomainNADP transhydrogenase beta-like domainInterproscan
IPR024605
all species →		DomainNAD(P) transhydrogenase, alpha subunit, C-terminalInterproscan
IPR029035
all species →		Homologous_superfamilyDHS-like NAD/FAD-binding domain superfamilyInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR10160
all species →		NAD(P) TRANSHYDROGENASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0008746
all species →		Molecular Functionobsolete NAD(P)+ transhydrogenase activityInterproscan
GO:1902600
all species →		Biological Processproton transmembrane transportInterproscan
GO:0005743
all species →		Cellular Componentmitochondrial inner membraneInterproscan
GO:0006740
all species →		Biological ProcessNADPH regenerationInterproscan
GO:0050661
all species →		Molecular FunctionNADP bindingInterproscan

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
KOEnzymeEnzyme IDPathwayMap IDSource
K00323NNT; proton-translocating NAD(P)+ transhydrogenaseEC:7.1.1.1
Nicotinate and nicotinamide metabolismko00760deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g10312.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
223.9Max TPM
120.3Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
Coral branch 39 39 120.34 223.86

Per sample · hover a bar for the full sample record

Show the sample table (39 samples)
SRA runConditionTissueDevelopmental stage TreatmentStudyTPM
SRR23047237 Coral branch Coral branch adult not recorded SRP416931 223.86
SRR23047209 Coral branch Coral branch adult not recorded SRP416931 191.12
SRR23047232 Coral branch Coral branch adult not recorded SRP416931 186.11
SRR23047219 Coral branch Coral branch adult not recorded SRP416931 174.11
SRR23047231 Coral branch Coral branch adult not recorded SRP416931 167.78
SRR23047211 Coral branch Coral branch adult not recorded SRP416931 166.35
SRR23047241 Coral branch Coral branch adult not recorded SRP416931 165.75
SRR23047218 Coral branch Coral branch adult not recorded SRP416931 161.90
SRR23047235 Coral branch Coral branch adult not recorded SRP416931 161.17
SRR23047215 Coral branch Coral branch adult not recorded SRP416931 150.34
SRR23047216 Coral branch Coral branch adult not recorded SRP416931 142.71
SRR23047236 Coral branch Coral branch adult not recorded SRP416931 132.74
SRR23047238 Coral branch Coral branch adult not recorded SRP416931 131.96
SRR23047225 Coral branch Coral branch adult not recorded SRP416931 126.45
SRR23047214 Coral branch Coral branch adult not recorded SRP416931 125.92
SRR23047213 Coral branch Coral branch adult not recorded SRP416931 124.75
SRR23047228 Coral branch Coral branch adult not recorded SRP416931 123.18
SRR23047233 Coral branch Coral branch adult not recorded SRP416931 122.81
SRR23047206 Coral branch Coral branch adult not recorded SRP416931 120.72
SRR23047212 Coral branch Coral branch adult not recorded SRP416931 119.24
SRR23047224 Coral branch Coral branch adult not recorded SRP416931 114.15
SRR23047223 Coral branch Coral branch adult not recorded SRP416931 112.48
SRR23047239 Coral branch Coral branch adult not recorded SRP416931 105.85
SRR23047217 Coral branch Coral branch adult not recorded SRP416931 96.74
SRR23047242 Coral branch Coral branch adult not recorded SRP416931 95.14
SRR23047234 Coral branch Coral branch adult not recorded SRP416931 92.48
SRR23047229 Coral branch Coral branch adult not recorded SRP416931 91.47
SRR23047230 Coral branch Coral branch adult not recorded SRP416931 90.16
SRR23047227 Coral branch Coral branch adult not recorded SRP416931 88.41
SRR23047240 Coral branch Coral branch adult not recorded SRP416931 86.66
SRR23047244 Coral branch Coral branch adult not recorded SRP416931 83.52
SRR23047222 Coral branch Coral branch adult not recorded SRP416931 82.97
SRR23047207 Coral branch Coral branch adult not recorded SRP416931 82.59
SRR23047220 Coral branch Coral branch adult not recorded SRP416931 78.39
SRR23047243 Coral branch Coral branch adult not recorded SRP416931 77.56
SRR23047226 Coral branch Coral branch adult not recorded SRP416931 76.91
SRR23047210 Coral branch Coral branch adult not recorded SRP416931 73.97
SRR23047208 Coral branch Coral branch adult not recorded SRP416931 72.86
SRR23047221 Coral branch Coral branch adult not recorded SRP416931 71.88

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.

DirectionPartnersMost correlated partnerPCC
Positively correlated52g27121.t10.936404106913672
Negatively correlated33g5845.t1-0.857912211002844

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

AssaySamplePeaksRegion
DNase-seq (DHS)WholeAnimal2Distal Intergenic 2

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.

AnalysisWhat it doesStatus
Primer designDesign PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.template foundopen →
BLASTSearch 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 foundopen →
Expression heatmapDraw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.readyopen →
Gene family / orthogroupLook 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 analysisStart a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.open →
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