LXL04_018487 | RubberDandelionOmics

Gene overview

LXL04_018487

Reference: OH-1004 Chr: Chr04 Coordinates: 13625008-13629386 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1878 bp · LXL04_018487|LXL04_018487|OH1004|cDNA

ATGGAGTGTTCGATGAATCACTTCCTGATTAAAAGTGGAATTGAATTGGGTTTGGCCAGTTACTTCTACTTTGATCTGATTTCTCTCTACTTCCTAGATCTGATTCCATCCACTCGATATTTCCCGTTGAAAACTAACGAAGTTTTTATGGCAATTAGGGATTCTGATATATCCGTTGCGAGGGTTTTAGTTTCATTACAATTAACTGTTCCTGTTCTTCTCAAAGGTCATATCTACGAAGAAATAGATATGGGGAAGAT...

CDS

Download CDS FASTA

1878 bp · LXL04_018487|LXL04_018487|OH1004|CDS

ATGGAGTGTTCGATGAATCACTTCCTGATTAAAAGTGGAATTGAATTGGGTTTGGCCAGTTACTTCTACTTTGATCTGATTTCTCTCTACTTCCTAGATCTGATTCCATCCACTCGATATTTCCCGTTGAAAACTAACGAAGTTTTTATGGCAATTAGGGATTCTGATATATCCGTTGCGAGGGTTTTAGTTTCATTACAATTAACTGTTCCTGTTCTTCTCAAAGGTCATATCTACGAAGAAATAGATATGGGGAAGAT...

Protein

Download Protein FASTA

625 aa · LXL04_018487|LXL04_018487|OH1004|PROTEIN

MECSMNHFLIKSGIELGLASYFYFDLISLYFLDLIPSTRYFPLKTNEVFMAIRDSDISVARVLVSLQLTVPVLLKGHIYEEIDMGKMELEECCLENKQSAAASSSSISEGSSGIVLPKSPRPSSPTATSPPHRRTSGPIRRAKGGWTPEEDETLKKAVGVFKGKCWKKIAEYFPDRSEVQCLHRWQKVLNPELIKGPWTQEEDEKIVELVKRYGPTKWSLIAKSLPGRIGKQCRERWHNHLNPDIKKDAWTLQEELALMN...

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

ID Mapping

Input ID	`LXL04_018487`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_018487

Location Chr04:13625008-13629386 (-)

Description Similar to MYB3R5: Transcription factor MYB3R-5

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g02320`	Transcription factor that binds 5'-AACGG-3' motifs in gene promoters (By similarity).	No verified direct reference in this release
`At3g09370`	Transcription factor that binds 5'-AACGG-3' motifs in gene promoters (By similarity).	Transcriptional repression by MYB3R proteins regulates plant organ growth.2015 · DOI: 10.15252/embj.201490899
`At5g11510`	Transcription factor that binds 5'-AACGG-3' motifs in gene promoters.	R1R2R3-Myb proteins positively regulate cytokinesis through activation of KNOLLE transcription in Arabidopsis thaliana.2007 · DOI: 10.1242/dev.02801 Laser microdissection of Arabidopsis cells at the powdery mildew infection site reveals site-specific processes and regulators.2010 · DOI: 10.1073/pnas.0912492107 Mutations in MYB3R1 and MYB3R4 cause pleiotropic developmental defects and preferential down-regulation of multiple G2/M-specific genes in Arabidopsis.2011 · DOI: 10.1104/pp.111.180836 Genetic interaction between G2/M phase-specific transcription factor MYB3R4 and MAPKKK ANP3 for execution of cytokinesis in Arabidopsis thaliana.2015 · DOI: 10.4161/15592324.2014.990817
`At4g32730`	Transcription factor that binds 5'-AACGG-3' motifs in gene promoters.	R1R2R3-Myb proteins positively regulate cytokinesis through activation of KNOLLE transcription in Arabidopsis thaliana.2007 · DOI: 10.1242/dev.02801 Mutations in MYB3R1 and MYB3R4 cause pleiotropic developmental defects and preferential down-regulation of multiple G2/M-specific genes in Arabidopsis.2011 · DOI: 10.1104/pp.111.180836

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0841500`	Transcription factor involved in abiotic stress responses.	Overexpression of an R1R2R3 MYB gene, OsMYB3R-2, increases tolerance to freezing, drought, and salt stress in transgenic Arabidopsis.2007 · DOI: 10.1104/pp.106.094532 Enhanced tolerance to chilling stress in OsMYB3R-2 transgenic rice is mediated by alteration in cell cycle and ectopic expression of stress genes.2009 · DOI: 10.1104/pp.108.133454

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_018487 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0006974 DNA damage response Biological Process

GO:0008285 negative regulation of cell population proliferation Biological Process

GO:0009409 response to cold Biological Process

GO:0009620 response to fungus Biological Process

GO:0009723 response to ethylene Biological Process

GO:0009733 response to auxin Biological Process

GO:0009751 response to salicylic acid Biological Process

GO:0009753 response to jasmonic acid Biological Process

GO:0032465 regulation of cytokinesis Biological Process

GO:0032875 regulation of DNA endoreduplication Biological Process

KEGG gene cross-reference

ath:AT3G09370

ath:AT4G32730

ath:AT5G02320

ath:AT5G11510

dosa:Os01g0841500

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

View expression for this gene

Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Nucleus0.887

Rank 1 · LXL04_018487 · OH-1004

Cytoplasm0.190

Rank 2 · LXL04_018487 · OH-1004

Cell membrane0.023

Rank 3 · LXL04_018487 · OH-1004

Mitochondrion0.022

Rank 4 · LXL04_018487 · OH-1004

Endoplasmic reticulum0.010

Rank 5 · LXL04_018487 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF00249.38Myb_DNA-binding143-189 aa

PF13921.13Myb_DNA-bind_6146-203 aa

PF00249.38Myb_DNA-binding195-241 aa

PF13921.13Myb_DNA-bind_6198-256 aa

PF00249.38Myb_DNA-binding247-290 aa

PF13921.13Myb_DNA-bind_6250-295 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018487	`PF00249.38`	Myb_DNA-binding	143	189	1.7e-53	179.2
LXL04_018487	`PF13921.13`	Myb_DNA-bind_6	146	203	1.2e-39	135.0
LXL04_018487	`PF00249.38`	Myb_DNA-binding	195	241	1.7e-53	179.2
LXL04_018487	`PF13921.13`	Myb_DNA-bind_6	198	256	1.2e-39	135.0
LXL04_018487	`PF00249.38`	Myb_DNA-binding	247	290	1.7e-53	179.2
LXL04_018487	`PF13921.13`	Myb_DNA-bind_6	250	295	1.2e-39	135.0

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

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Protein	Organism	Description	Identity	Database	Confidence
`Q6R032`	Arabidopsis thaliana	Transcription factor MYB3R-5	46.528%	Swiss-Prot	moderate database homology
`Q8H1P9`	Arabidopsis thaliana	Transcription factor MYB3R-3	47.961%	Swiss-Prot	moderate database homology
`Q94FL9`	Arabidopsis thaliana	Transcription factor MYB3R-4	71.429%	Swiss-Prot	weak database homology
`Q9S7G7`	Arabidopsis thaliana	Transcription factor MYB3R-1	71.676%	Swiss-Prot	weak database homology
`Q0JHU7`	Oryza sativa subsp. japonica	Transcription factor MYB3R-2	44.524%	Swiss-Prot	moderate database homology

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