LXL04_008266 | RubberDandelionOmics

Gene overview

LXL04_008266

Reference: OH-1004 Chr: Chr02 Coordinates: 95158406-95160302 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1077 bp · LXL04_008266|LXL04_008266|OH1004|cDNA

ATGGGACATGGAGGCGGACATACTTGCTGCAACAAACAGAAGGTCAAAAGAGGGCTATGGTCACCTGAAGAAGACGAGAAACTCATCAACTACATTACTTCCCATGGCCATGGCTGCTGGAGCTCCGTTCCTAAGCTTGCtgGACTCCAAAGATGCGGCAAGAGTTGTAGATTGCGATGGATTAATTATCTAAGGCCGGATTTGAAGCGAGGAAGCTTTTCTTCCCAAGAAGCCACTCTCATAGTCGACCTTCACCGAAT...

CDS

Download CDS FASTA

1077 bp · LXL04_008266|LXL04_008266|OH1004|CDS

ATGGGACATGGAGGCGGACATACTTGCTGCAACAAACAGAAGGTCAAAAGAGGGCTATGGTCACCTGAAGAAGACGAGAAACTCATCAACTACATTACTTCCCATGGCCATGGCTGCTGGAGCTCCGTTCCTAAGCTTGCTGGACTCCAAAGATGCGGCAAGAGTTGTAGATTGCGATGGATTAATTATCTAAGGCCGGATTTGAAGCGAGGAAGCTTTTCTTCCCAAGAAGCCACTCTCATAGTCGACCTTCACCGAAT...

Protein

Download Protein FASTA

358 aa · LXL04_008266|LXL04_008266|OH1004|PROTEIN

MGHGGGHTCCNKQKVKRGLWSPEEDEKLINYITSHGHGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGSFSSQEATLIVDLHRILGNRWAQIAKHLPGRTDNEVKNFWNSSIKKKLLAHSHLSTHPLATTFSNPKTTNIHFPLNNDHHQQYYDSLFDANPTVISPYQPHMNNNHDHTVNPPTVINLDKCFDIDPTPNLPPLPQSFIVNPSSVFDHQFPTMEFLNSYDHNILKSENYDLILGHNSDHDHQHAILPSKL...

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_008266`
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_008266

Location Chr02:95158406-95160302 (+)

Description Similar to MYB26: Transcription factor MYB26

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g13890`	Probable transcription factor that regulates lignified secondary cell wall thickening of the anther endocethium, which is necessary for anther dehiscence.	Disruption of Arabidopsis thaliana MYB26 results in male sterility due to non-dehiscent anthers.2003 · DOI: 10.1046/j.1365-313x.2003.01745.x Efficient production of male and female sterile plants by expression of a chimeric repressor in Arabidopsis and rice.2006 · DOI: 10.1111/j.1467-7652.2006.00184.x Arabidopsis MYB26/MALE STERILE35 regulates secondary thickening in the endothecium and is essential for anther dehiscence.2007 · DOI: 10.1105/tpc.106.046391
`At5g26660`	Probable transcription factor.	No verified direct reference in this release
`At1g09540`	Transcription factor that coordinates a small network of downstream target genes required for several aspects of plant growth and development, such as xylem formation and xylem cell differentiation, and lateral root formation.	AtMYB61, an R2R3-MYB transcription factor controlling stomatal aperture in Arabidopsis thaliana.2005 · DOI: 10.1016/j.cub.2005.06.041 MUM ENHANCERS are important for seed coat mucilage production and mucilage secretory cell differentiation in Arabidopsis thaliana.2009 · DOI: 10.1093/jxb/erp102 AtMYB61, an R2R3-MYB transcription factor, functions as a pleiotropic regulator via a small gene network.2012 · DOI: 10.1111/j.1469-8137.2012.04201.x Interactions between the R2R3-MYB transcription factor, AtMYB61, and target DNA binding sites.2013 · DOI: 10.1371/journal.pone.0065132 AaMYB1 and its orthologue AtMYB61 affect terpene metabolism and trichome development in Artemisia annua and Arabidopsis thaliana.2017 · DOI: 10.1111/tpj.13509
`At5g12870`	Transcription activator.	The MYB46 transcription factor is a direct target of SND1 and regulates secondary wall biosynthesis in Arabidopsis.2007 · DOI: 10.1105/tpc.107.053678 MYB83 is a direct target of SND1 and acts redundantly with MYB46 in the regulation of secondary cell wall biosynthesis in Arabidopsis.2009 · DOI: 10.1093/pcp/pcp139 MYB46 and MYB83 bind to the SMRE sites and directly activate a suite of transcription factors and secondary wall biosynthetic genes.2012 · DOI: 10.1093/pcp/pcr185 Transcription factor MYB46 is an obligate component of the transcriptional regulatory complex for functional expression of secondary wall-associated cellulose synthases in Arabidopsis thaliana.2013 · DOI: 10.1016/j.jplph.2013.04.012 Transcription factors that directly regulate the expression of CSLA9 encoding mannan synthase in Arabidopsis thaliana.2014 · DOI: 10.1007/s11103-013-0154-9

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_008266 · 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:0009834 plant-type secondary cell wall biogenesis Biological Process

GO:0010087 phloem or xylem histogenesis Biological Process

GO:0010089 xylem development Biological Process

GO:0010119 regulation of stomatal movement Biological Process

GO:0010214 seed coat development Biological Process

GO:0045892 negative regulation of DNA-templated transcription Biological Process

GO:0045893 positive regulation of DNA-templated transcription Biological Process

GO:0048364 root development Biological Process

GO:0050832 defense response to fungus Biological Process

GO:1901348 positive regulation of secondary cell wall biogenesis Biological Process

KEGG gene cross-reference

ath:AT1G09540

ath:AT3G13890

ath:AT5G12870

ath:AT5G26660

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.

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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.

Nucleus0.958

Rank 1 · LXL04_008266 · OH-1004

Cytoplasm0.126

Rank 2 · LXL04_008266 · OH-1004

Cell membrane0.020

Rank 3 · LXL04_008266 · OH-1004

Endoplasmic reticulum0.015

Rank 4 · LXL04_008266 · OH-1004

Plastid0.010

Rank 5 · LXL04_008266 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

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

PF00249.38Myb_DNA-binding17-64 aa

PF13921.13Myb_DNA-bind_620-78 aa

PF00249.38Myb_DNA-binding70-113 aa

PF13921.13Myb_DNA-bind_673-118 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_008266	`PF00249.38`	Myb_DNA-binding	17	64	6.3e-35	119.8
LXL04_008266	`PF13921.13`	Myb_DNA-bind_6	20	78	4.1e-19	69.2
LXL04_008266	`PF00249.38`	Myb_DNA-binding	70	113	6.3e-35	119.8
LXL04_008266	`PF13921.13`	Myb_DNA-bind_6	73	118	4.1e-19	69.2

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
`Q9SPG3`	Arabidopsis thaliana	Transcription factor MYB26	82.308%	Swiss-Prot	weak database homology
`Q8LPH6`	Arabidopsis thaliana	Transcription factor MYB86	80.000%	Swiss-Prot	weak database homology
`Q8VZQ2`	Arabidopsis thaliana	Transcription factor MYB61	80.000%	Swiss-Prot	weak database homology
`Q9LXV2`	Arabidopsis thaliana	Transcription factor MYB46	72.973%	Swiss-Prot	weak database homology

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