LXL04_031317 | RubberDandelionOmics

Gene overview

LXL04_031317

Reference: OH-1004 Chr: Chr07 Coordinates: 4466474-4468052 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

900 bp · LXL04_031317|LXL04_031317|OH1004|cDNA

atggAGGAAACTGGGGGTGGTGCCGGCTGCAGCGATGATGCAAGGTCCACGTGTCCTAGAGGACACTGGAGACCGGCGGAGGATGAAAAACTCCGGCAGCTTGTTGAACGATATGGCCCACAGAACTGGAACTCGATTGCCGAGAAGCTTCAAGGACGATCAGGAAAAAGTTGCAGATTAAGATGGTTCAATCAACTTGACCCGAGAATAAACCGAAGGCCATTtacagaagaagaagaagaaagactttTAGCAGCTCA...

CDS

Download CDS FASTA

900 bp · LXL04_031317|LXL04_031317|OH1004|CDS

ATGGAGGAAACTGGGGGTGGTGCCGGCTGCAGCGATGATGCAAGGTCCACGTGTCCTAGAGGACACTGGAGACCGGCGGAGGATGAAAAACTCCGGCAGCTTGTTGAACGATATGGCCCACAGAACTGGAACTCGATTGCCGAGAAGCTTCAAGGACGATCAGGAAAAAGTTGCAGATTAAGATGGTTCAATCAACTTGACCCGAGAATAAACCGAAGGCCATTTACAGAAGAAGAAGAAGAAAGACTTTTAGCAGCTCA...

Protein

Download Protein FASTA

299 aa · LXL04_031317|LXL04_031317|OH1004|PROTEIN

MEETGGGAGCSDDARSTCPRGHWRPAEDEKLRQLVERYGPQNWNSIAEKLQGRSGKSCRLRWFNQLDPRINRRPFTEEEEERLLAAHRVHGNRWALISRLFPGRTDNAVKNHWHVIMARKQREKSKICDKRNCHDDLHITHNQNTDHQRDSNSTLKYSSSISFSSSYSQFMQFQNLNKERNSPWSFTSPRSLSSLDLNARRESTDFCSTSRILHHHSLSDHFASKNYLSSNGGYSHRAKFSSPFQSHDGVLISSGNKMKK...

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_031317`
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_031317

Location Chr07:4466474-4468052 (-)

Description Similar to MYB52: Transcription factor MYB52

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g17950`	Transcription factor that confers sensitivity to abscisic acid (ABA) and salt, but tolerance to drought.	A battery of transcription factors involved in the regulation of secondary cell wall biosynthesis in Arabidopsis.2008 · DOI: 10.1105/tpc.108.061325 Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis.2013 · DOI: 10.3389/fpls.2013.00189
`At1g69560`	Probable transcription factor that involved in boundary specification, meristem initiation and maintenance, and organ patterning.	LATERAL ORGAN FUSION1 and LATERAL ORGAN FUSION2 function in lateral organ separation and axillary meristem formation in Arabidopsis.2009 · DOI: 10.1242/dev.031971
`At1g73410`	Transcription factor that regulates secondary cell wall (SCW) biosynthesis, especially in interfascicular and xylary fibers.	A battery of transcription factors involved in the regulation of secondary cell wall biosynthesis in Arabidopsis.2008 · DOI: 10.1105/tpc.108.061325
`At1g26780`	Probable transcription factor that involved in boundary specification, meristem initiation and maintenance, and organ patterning.	LATERAL ORGAN FUSION1 and LATERAL ORGAN FUSION2 function in lateral organ separation and axillary meristem formation in Arabidopsis.2009 · DOI: 10.1242/dev.031971 Characterization of constricted fruit (ctf) mutant uncovers a role for AtMYB117/LOF1 in ovule and fruit development in Arabidopsis thaliana.2011 · DOI: 10.1371/journal.pone.0018760

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0274800`	Transcription factor required for sugar partitioning from leaves to anthers during male reproductive development.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_031317 · 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:0009414 response to water deprivation Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009834 plant-type secondary cell wall biogenesis Biological Process

GO:0010199 organ boundary specification between lateral organs and the meristem Biological Process

GO:0071555 cell wall organization Biological Process

GO:1901347 negative regulation of secondary cell wall biogenesis Biological Process

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

GO:1902074 response to salt Biological Process

GO:2000652 regulation of secondary cell wall biogenesis Biological Process

GO:0005634 nucleus Cellular Component

KEGG gene cross-reference

ath:AT1G17950

ath:AT1G26780

ath:AT1G69560

ath:AT1G73410

dosa:Os01g0274800

osa:4325181

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.

Nucleus0.969

Rank 1 · LXL04_031317 · OH-1004

Cytoplasm0.084

Rank 2 · LXL04_031317 · OH-1004

Cell membrane0.025

Rank 3 · LXL04_031317 · OH-1004

Endoplasmic reticulum0.012

Rank 4 · LXL04_031317 · OH-1004

Plastid0.012

Rank 5 · LXL04_031317 · 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-binding20-66 aa

PF13921.13Myb_DNA-bind_623-83 aa

PF00249.38Myb_DNA-binding72-114 aa

PF13921.13Myb_DNA-bind_675-126 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_031317	`PF00249.38`	Myb_DNA-binding	20	66	9e-36	122.5
LXL04_031317	`PF13921.13`	Myb_DNA-bind_6	23	83	5.6e-27	94.4
LXL04_031317	`PF00249.38`	Myb_DNA-binding	72	114	9e-36	122.5
LXL04_031317	`PF13921.13`	Myb_DNA-bind_6	75	126	5.6e-27	94.4

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q6R0C4`	Arabidopsis thaliana	Transcription factor MYB52	53.110%	Swiss-Prot	moderate database homology
`Q9SEZ4`	Arabidopsis thaliana	Transcription factor MYB105	56.452%	Swiss-Prot	moderate database homology
`Q9FX36`	Arabidopsis thaliana	Transcription factor MYB54	83.636%	Swiss-Prot	weak database homology
`Q9LQX5`	Arabidopsis thaliana	Transcription factor MYB117	79.464%	Swiss-Prot	weak database homology
`Q5NBM8`	Oryza sativa subsp. japonica	Transcription factor CSA	79.825%	Swiss-Prot	weak database homology

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