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Gene Annotation

Shows the current gene functional description, GO annotations, and KEGG cross-references. Functional annotations retain the source reference; direct Arabidopsis/rice sequence hits are shown separately.

Examples TkA01G624900 LXL04_000258 Reference examples LXL04_039733 TkAUNG001940

Search Results

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Gene IDLXL04_002299
Query referenceOH1004
LocationChr01:45668132-45670441 (-)
DescriptionSimilar to CPL1: RNA polymerase II C-terminal domain phosphatase-like 1 (Arabidopsis thaliana OX%3D3702)
Annotation source assemblyGCA_047496595.1_OSU_TarKok_2.0

Functional annotation source: OH1004 · LXL04_002299 · GCA_047496595.1_OSU_TarKok_2.0.

This query returns 37 GO annotations and 5 KEGG gene cross-references from the OH1004 annotation record. The download is scoped to this query; these records do not establish KEGG pathway membership.

Arabidopsis / Rice Reference Genes and Papers

Papers describe Arabidopsis or rice reference genes. Functional links to rubber dandelion are based on protein alignments from the queried assembly.

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g21670 Processively dephosphorylates 'Ser-5' but not 'Ser-2' of the heptad repeats YSPTSPS in the C-terminal domain of the largest RNA polymerase II subunit (RPB1).
Fusion genetic analysis of jasmonate-signalling mutants in Arabidopsis.2002 · DOI: 10.1046/j.0960-7412.2001.01241.x
C-terminal domain phosphatase-like family members (AtCPLs) differentially regulate Arabidopsis thaliana abiotic stress signaling, growth, and development.2002 · DOI: 10.1073/pnas.112276199
Repression of stress-responsive genes by FIERY2, a novel transcriptional regulator in Arabidopsis.2002 · DOI: 10.1073/pnas.162111599
Arabidopsis C-terminal domain phosphatase-like 1 and 2 are essential Ser-5-specific C-terminal domain phosphatases.2004 · DOI: 10.1073/pnas.0403174101
CTD phosphatases in the attenuation of wound-induced transcription of jasmonic acid biosynthetic genes in Arabidopsis.2009 · DOI: 10.1111/j.1365-313x.2008.03663.x
The arabidopsis RNA binding protein with K homology motifs, SHINY1, interacts with the C-terminal domain phosphatase-like 1 (CPL1) to repress stress-inducible gene expression.2013 · DOI: 10.1371/journal.pgen.1003625
The RNA-binding protein HOS5 and serine/arginine-rich proteins RS40 and RS41 participate in miRNA biogenesis in Arabidopsis.2015 · DOI: 10.1093/nar/gkv751
The RNA Polymerase II C-Terminal Domain Phosphatase-Like Protein FIERY2/CPL1 Interacts with eIF4AIII and Is Essential for Nonsense-Mediated mRNA Decay in Arabidopsis.2016 · DOI: 10.1105/tpc.15.00771
At4g16155 Lipoamide dehydrogenase is a component of the plastidial pyruvate dehydrogenase complex (PDC). No verified direct reference in this release
At3g16950 Lipoamide dehydrogenase is a component of the plastidial pyruvate dehydrogenase complex (PDC). No verified direct reference in this release
At5g01270 Processively dephosphorylates 'Ser-5' but not 'Ser-2' of the heptad repeats YSPTSPS in the C-terminal domain of the largest RNA polymerase II subunit (RPB1).
Arabidopsis C-terminal domain phosphatase-like 1 and 2 are essential Ser-5-specific C-terminal domain phosphatases.2004 · DOI: 10.1073/pnas.0403174101
The Arabidopsis thaliana carboxyl-terminal domain phosphatase-like 2 regulates plant growth, stress and auxin responses.2008 · DOI: 10.1007/s11103-008-9348-y
A protein complex regulates RNA processing of intronic heterochromatin-containing genes in Arabidopsis .2017 · DOI: 10.1073/pnas.1710683114
Coupling of H3K27me3 recognition with transcriptional repression through the BAH-PHD-CPL2 complex in Arabidopsis.2020 · DOI: 10.1038/s41467-020-20089-0

Rice

No hit for this species in the current source table.

GO / KEGG

These GO/KEGG records retain the OH1004 annotation source and original transfer evidence/coverage. Their source-species scope differs from the direct Arabidopsis/rice alignment table.

TypeIDNameNamespaceEvidenceSource
GOGO:0000184nuclear-transcribed mRNA catabolic process, nonsense-mediated decayBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IEA:UniProtKB-KWUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0006086pyruvate decarboxylation to acetyl-CoABiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=3; identity=75.556; coverage=11.568; evalue=8.54e-14; UniProt GO evidence=TAS:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:00061032-oxoglutarate metabolic processBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=2; identity=85.366; coverage=10.54; evalue=2.25e-14; UniProt GO evidence=IBA:GO_CentralUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0006351DNA-templated transcriptionBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IEA:UniProtKB-KWUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0006970response to osmotic stressBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=5; identity=33.577; coverage=35.219; evalue=1.63e-10; UniProt GO evidence=IMP:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009611response to woundingBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009651response to salt stressBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IMP:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009733response to auxinBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=5; identity=33.577; coverage=35.219; evalue=1.63e-10; UniProt GO evidence=IMP:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009734auxin-activated signaling pathwayBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=5; identity=33.577; coverage=35.219; evalue=1.63e-10; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009738abscisic acid-activated signaling pathwayBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IMP:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0010468regulation of gene expressionBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=5; identity=33.577; coverage=35.219; evalue=1.63e-10; UniProt GO evidence=IMP:GO_CentralUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0034244negative regulation of transcription elongation by RNA polymerase IIBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=5; identity=33.577; coverage=35.219; evalue=1.63e-10; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0045814negative regulation of gene expression, epigeneticBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=5; identity=33.577; coverage=35.219; evalue=1.63e-10; UniProt GO evidence=IDA:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0045892negative regulation of DNA-templated transcriptionBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IMP:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0046685response to arsenic-containing substanceBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=2; identity=85.366; coverage=10.54; evalue=2.25e-14; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0048589developmental growthBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=5; identity=33.577; coverage=35.219; evalue=1.63e-10; UniProt GO evidence=IMP:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:2000028regulation of photoperiodism, floweringBiological ProcessSwiss-Prot reviewed homolog transfer; hit_rank=5; identity=33.577; coverage=35.219; evalue=1.63e-10; UniProt GO evidence=IMP:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0005634nucleusCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IDA:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0005730nucleolusCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=3; identity=75.556; coverage=11.568; evalue=8.54e-14; UniProt GO evidence=HDA:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0005737cytoplasmCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=5; identity=33.577; coverage=35.219; evalue=1.63e-10; UniProt GO evidence=IDA:UniProtKBUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0005739mitochondrionCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=2; identity=85.366; coverage=10.54; evalue=2.25e-14; UniProt GO evidence=IBA:GO_CentralUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0005829cytosolCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=2; identity=85.366; coverage=10.54; evalue=2.25e-14; UniProt GO evidence=HDA:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0005886plasma membraneCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=4; identity=64.444; coverage=11.568; evalue=8.36e-11; UniProt GO evidence=IEA:UniProtKB-SubCellUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009507chloroplastCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=2; identity=85.366; coverage=10.54; evalue=2.25e-14; UniProt GO evidence=IDA:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009570chloroplast stromaCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=2; identity=85.366; coverage=10.54; evalue=2.25e-14; UniProt GO evidence=HDA:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0009941chloroplast envelopeCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=2; identity=85.366; coverage=10.54; evalue=2.25e-14; UniProt GO evidence=HDA:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0016607nuclear speckCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IEA:UniProtKB-SubCellUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0045252oxoglutarate dehydrogenase complexCellular ComponentSwiss-Prot reviewed homolog transfer; hit_rank=2; identity=85.366; coverage=10.54; evalue=2.25e-14; UniProt GO evidence=IBA:GO_CentralUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0003677DNA bindingMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IPI:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0003723RNA bindingMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IEA:UniProtKB-KWUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0004148dihydrolipoyl dehydrogenase (NADH) activityMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=2; identity=85.366; coverage=10.54; evalue=2.25e-14; UniProt GO evidence=IBA:GO_CentralUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0004721phosphoprotein phosphatase activityMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IDA:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0004722protein serine/threonine phosphatase activityMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IDA:GO_CentralUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0008420RNA polymerase II CTD heptapeptide repeat phosphatase activityMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IBA:GO_CentralUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0016791phosphatase activityMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IDA:TAIRUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0046872metal ion bindingMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32; UniProt GO evidence=IEA:UniProtKB-KWUniProtKB/Swiss-Prot DAT 2026 current_release
GOGO:0050660flavin adenine dinucleotide bindingMolecular FunctionSwiss-Prot reviewed homolog transfer; hit_rank=2; identity=85.366; coverage=10.54; evalue=2.25e-14; UniProt GO evidence=IBA:GO_CentralUniProtKB/Swiss-Prot DAT 2026 current_release
KEGGath:AT3G16950KEGG gene cross-reference from reviewed UniProt hit; pathway name pendingSwiss-Prot reviewed homolog transfer; hit_rank=3; identity=75.556; coverage=11.568; evalue=8.54e-14UniProtKB/Swiss-Prot DAT 2026 current_release
KEGGath:AT4G16155KEGG gene cross-reference from reviewed UniProt hit; pathway name pendingSwiss-Prot reviewed homolog transfer; hit_rank=2; identity=85.366; coverage=10.54; evalue=2.25e-14UniProtKB/Swiss-Prot DAT 2026 current_release
KEGGath:AT4G21670KEGG gene cross-reference from reviewed UniProt hit; pathway name pendingSwiss-Prot reviewed homolog transfer; hit_rank=1; identity=39.64; coverage=57.069; evalue=1.03e-32UniProtKB/Swiss-Prot DAT 2026 current_release
KEGGath:AT5G01270KEGG gene cross-reference from reviewed UniProt hit; pathway name pendingSwiss-Prot reviewed homolog transfer; hit_rank=5; identity=33.577; coverage=35.219; evalue=1.63e-10UniProtKB/Swiss-Prot DAT 2026 current_release
KEGGsyn:slr1096KEGG gene cross-reference from reviewed UniProt hit; pathway name pendingSwiss-Prot reviewed homolog transfer; hit_rank=4; identity=64.444; coverage=11.568; evalue=8.36e-11UniProtKB/Swiss-Prot DAT 2026 current_release