Detailed information of XP_029191141.2 in Acropora millepora

Genomic Location: NC_058069.1:2210691...2211706
NR annotation: XP_029191141.2, 6-phosphogluconolactonase-like [Acropora millepora]
Species Acropora millepora · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
O953366-phosphogluconolactonase OS=Homo sapiens OX=9606 GN=PGLS PE=1 SV=2
Q2TBQ86-phosphogluconolactonase OS=Bos taurus OX=9913 GN=PGLS PE=2 SV=1
Q9CQ606-phosphogluconolactonase OS=Mus musculus OX=10090 GN=Pgls PE=1 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0008958 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF01182
all species →		Glucosamine_isoGlucosamine-6-phosphate isomerases/6-phosphogluconolactonaseDomainInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR037171
all species →		Homologous_superfamilyNagB/RpiA transferase-likeInterproscan
IPR039104
all species →		Family6-PhosphogluconolactonaseInterproscan
IPR005900
all species →		Domain6-phosphogluconolactonase, DevB-typeInterproscan
IPR006148
all species →		DomainGlucosamine/galactosamine-6-phosphate isomeraseInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR11054
all species →		6-PHOSPHOGLUCONOLACTONASEInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0005975
all species →		Biological Processcarbohydrate metabolic processInterproscan
GO:0006098
all species →		Biological Processpentose-phosphate shuntInterproscan
GO:0017057
all species →		Molecular Function6-phosphogluconolactonase activityInterproscan

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
K01057PGLS, pgl, devB; 6-phosphogluconolactonaseEC:3.1.1.31
Pentose phosphate pathwayko00030deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of XP_029191141.2 across 54 RNA-seq samples of Acropora millepora. 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.

54Samples
51TPM > 0
2Conditions
749.6Max TPM
276.4Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
whole larvae 30 27 256.44 749.59
branch 24 24 301.31 740.53

Per sample · hover a bar for the full sample record

Show the sample table (54 samples)
SRA runConditionTissueDevelopmental stage TreatmentStudyTPM
SRR1929634 whole larvae whole larvae adult not recorded SRP056536 749.59
SRR1929608 whole larvae whole larvae adult not recorded SRP056536 563.97
SRR1929617 whole larvae whole larvae adult not recorded SRP056536 497.48
SRR1929623 whole larvae whole larvae adult not recorded SRP056536 494.83
SRR1929615 whole larvae whole larvae adult not recorded SRP056536 440.68
SRR1929630 whole larvae whole larvae adult not recorded SRP056536 406.10
SRR1929633 whole larvae whole larvae adult not recorded SRP056536 367.22
SRR1929610 whole larvae whole larvae adult not recorded SRP056536 354.95
SRR1929631 whole larvae whole larvae adult not recorded SRP056536 350.85
SRR1929607 whole larvae whole larvae adult not recorded SRP056536 344.88
SRR1929621 whole larvae whole larvae adult not recorded SRP056536 333.42
SRR1929606 whole larvae whole larvae adult not recorded SRP056536 309.32
SRR1929618 whole larvae whole larvae adult not recorded SRP056536 305.85
SRR1929609 whole larvae whole larvae adult not recorded SRP056536 268.33
SRR1929625 whole larvae whole larvae adult not recorded SRP056536 233.75
SRR1929612 whole larvae whole larvae adult not recorded SRP056536 229.03
SRR1929613 whole larvae whole larvae adult not recorded SRP056536 211.68
SRR1929616 whole larvae whole larvae adult not recorded SRP056536 186.19
SRR1929626 whole larvae whole larvae adult not recorded SRP056536 173.63
SRR1929611 whole larvae whole larvae adult not recorded SRP056536 154.82
SRR1929632 whole larvae whole larvae adult not recorded SRP056536 152.96
SRR1929605 whole larvae whole larvae adult not recorded SRP056536 129.63
SRR1929627 whole larvae whole larvae adult not recorded SRP056536 105.84
SRR1929622 whole larvae whole larvae adult not recorded SRP056536 101.05
SRR1929614 whole larvae whole larvae adult not recorded SRP056536 93.39
SRR1929629 whole larvae whole larvae adult not recorded SRP056536 81.71
SRR1929628 whole larvae whole larvae adult not recorded SRP056536 51.95
SRR1929619 whole larvae whole larvae adult not recorded SRP056536 0.00
SRR1929620 whole larvae whole larvae adult not recorded SRP056536 0.00
SRR1929624 whole larvae whole larvae adult not recorded SRP056536 0.00
SRR1929603 branch branch adult not recorded SRP056536 740.53
SRR1929604 branch branch adult not recorded SRP056536 675.42
SRR1929587 branch branch adult not recorded SRP056536 466.22
SRR1929594 branch branch adult not recorded SRP056536 458.20
SRR1929598 branch branch adult not recorded SRP056536 452.95
SRR1929586 branch branch adult not recorded SRP056536 379.46
SRR1929595 branch branch adult not recorded SRP056536 368.10
SRR1929589 branch branch adult not recorded SRP056536 323.50
SRR1929588 branch branch adult not recorded SRP056536 323.07
SRR1929596 branch branch adult not recorded SRP056536 312.99
SRR1929583 branch branch adult not recorded SRP056536 299.32
SRR1929592 branch branch adult not recorded SRP056536 296.00
SRR1929591 branch branch adult not recorded SRP056536 245.01
SRR1929600 branch branch adult not recorded SRP056536 241.05
SRR1929585 branch branch adult not recorded SRP056536 237.88
SRR1929602 branch branch adult not recorded SRP056536 228.52
SRR1929597 branch branch adult not recorded SRP056536 225.69
SRR1929581 branch branch adult not recorded SRP056536 203.26
SRR1929590 branch branch adult not recorded SRP056536 197.68
SRR1929582 branch branch adult not recorded SRP056536 159.96
SRR1929599 branch branch adult not recorded SRP056536 139.81
SRR1929601 branch branch adult not recorded SRP056536 109.57
SRR1929584 branch branch adult not recorded SRP056536 88.85
SRR1929593 branch branch adult not recorded SRP056536 58.52

Source: CnidoSite RNA-seq expression matrices (AMILL_TPM, StringTie quantification over 54 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 millepora 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 correlated0not in this network-
Negatively correlated78XP_029195063.2-0.448497632892418

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 millepora, 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.

DatasetTissue / stageCellsCell typesThis geneMarker of
AMILL_whole_adultWhole adults · Adult tissues/organs25,16427not in this dataset–

A gene is in viewer when the dataset ships a per-cell expression vector for it; marker only means it is in the dataset’s ranked marker table but no vector was exported, so the atlas cannot draw it; not in this dataset means the dataset’s own gene-ID table does not list it, so no expression claim can be made for that dataset. unmapped is deliberately weaker still: the dataset has no gene-ID table on CnidoSite yet, so nothing is claimed in either direction. Where markers are listed, the numbers are log2 fold change and the percentage of cells of that type in which the gene was detected.

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.

DNA methylation (bisulphite samples)

SampleMethylation profile
planulaopen

The DNA Methylation page locates this gene by scanning the bisulphite table, which holds one row per cytosine. For the largest datasets that scan takes a while to return; it does not mean the link is broken.

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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