LXL04_020636 | RubberDandelionOmics

Gene overview

LXL04_020636

Reference: OH-1004 Chr: Chr04 Coordinates: 100401515-100402714 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

827 bp · LXL04_020636|LXL04_020636|OH1004|cDNA

ATGATGTCGGAATCACAGTCAGGATGCGGGATGAACGGTGGCGATGATGGCTCCGGTGAGATCATGTTGTCCGGAGTCAGAGTGAAGGTTGTTCCGATGCGGAAGAGTGTGAGTATGAACGATCTGTCACAGTATGTACAGGTACAGCCTGCTACTCATGATTCGTCTAACAATAGTGCTAACCTAGATGGCTCCACCGCGATTGCTGCCGATAACGGTTACGCCTCCGCTGATGATGCTGTCTGCAACCAATCCAATGG...

CDS

Download CDS FASTA

819 bp · LXL04_020636|LXL04_020636|OH1004|CDS

ATGATGTCGGAATCACAGTCAGGATGCGGGATGAACGGTGGCGATGATGGCTCCGGTGAGATCATGTTGTCCGGAGTCAGAGTGAAGGTTGTTCCGATGCGGAAGAGTGTGAGTATGAACGATCTGTCACAGTATGTACAGGTACAGCCTGCTACTCATGATTCGTCTAACAATAGTGCTAACCTAGATGGCTCCACCGCGATTGCTGCCGATAACGGTTACGCCTCCGCTGATGATGCTGTCTGCAACCAATCCAATGG...

Protein

Download Protein FASTA

272 aa · LXL04_020636|LXL04_020636|OH1004|PROTEIN

MMSESQSGCGMNGGDDGSGEIMLSGVRVKVVPMRKSVSMNDLSQYVQVQPATHDSSNNSANLDGSTAIAADNGYASADDAVCNQSNGGREHKRGIPWTEEEHKVFLLGLQKVGKGDCRGISRNYVKTLTPTQVASHAQKYFLCRSNLNRRHRRSSLFDITTESVAAIPVEEQKNHEDNNIQPAQQISTLSGFPLMAAFPTTVGPHPSPLPIIEDQMEIKSTRTNVNLNHNHENKSLSLSLNLSLSYDNNRMDTSAFQVIS...

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_020636`
TK1151 ID	TkA05G278550
OH-1004 ID	LXL04_020636
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	97.800
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
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_020636

Location Chr04:100401515-100402714 (+)

Description Similar to Transcription factor MYB1R1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g47390`	Transcriptional repressor.	A novel Arabidopsis MYB-like transcription factor, MYBH, regulates hypocotyl elongation by enhancing auxin accumulation.2013 · DOI: 10.1093/jxb/ert223 Transcriptional control of ROS homeostasis by KUODA1 regulates cell expansion during leaf development.2014 · DOI: 10.1038/ncomms4767 A single-repeat MYB transcription repressor, MYBH, participates in regulation of leaf senescence in Arabidopsis.2015 · DOI: 10.1007/s11103-015-0321-2
`At5g61620`	Probable transcription factor involved in somatic embryogenesis.	Stress-related function of bHLH109 in somatic embryo induction in Arabidopsis.2016 · DOI: 10.1016/j.jplph.2016.02.012

Rice

Reference gene ID	Possible function	Papers / DOI
`Os10g0561400`	Transcription repressor that binds to 5'-TATCCA-3' elements in gene promoters.	Three novel MYB proteins with one DNA binding repeat mediate sugar and hormone regulation of alpha-amylase gene expression.2002 · DOI: 10.1105/tpc.001735 A novel MYBS3-dependent pathway confers cold tolerance in rice.2010 · DOI: 10.1104/pp.110.153015
`Os01g0524500`	Transcription activator that binds to 5'-TATCCA-3' elements in gene promoters.	Three novel MYB proteins with one DNA binding repeat mediate sugar and hormone regulation of alpha-amylase gene expression.2002 · DOI: 10.1105/tpc.001735 Convergent starvation signals and hormone crosstalk in regulating nutrient mobilization upon germination in cereals.2012 · DOI: 10.1105/tpc.112.097741

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_020636 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000122 negative regulation of transcription by RNA polymerase II Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009646 response to absence of light Biological Process

GO:0009723 response to ethylene Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009739 response to gibberellin Biological Process

GO:0009744 response to sucrose Biological Process

GO:0009751 response to salicylic acid Biological Process

GO:0010150 leaf senescence Biological Process

GO:0010597 green leaf volatile biosynthetic process Biological Process

GO:0030307 positive regulation of cell growth Biological Process

KEGG gene cross-reference

ath:AT5G47390

ath:AT5G61620

sot:102577613

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.

Nucleus0.964

Rank 1 · LXL04_020636 · OH-1004

Cytoplasm0.104

Rank 2 · LXL04_020636 · OH-1004

Cell membrane0.030

Rank 3 · LXL04_020636 · OH-1004

Endoplasmic reticulum0.017

Rank 4 · LXL04_020636 · OH-1004

Plastid0.012

Rank 5 · LXL04_020636 · 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-binding96-141 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_020636	`PF00249.38`	Myb_DNA-binding	96	141	7.7e-06	26.6

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
`Q9LVS0`	Arabidopsis thaliana	Transcription factor KUA1	52.830%	Swiss-Prot	moderate database homology
`Q9FKF9`	Arabidopsis thaliana	Probable transcription factor At5g61620	37.864%	Swiss-Prot	moderate database homology
`Q7XC57`	Oryza sativa subsp. japonica	Transcription factor MYBS3	51.678%	Swiss-Prot	moderate database homology
`Q8LH59`	Oryza sativa subsp. japonica	Transcription factor MYBS1	61.250%	Swiss-Prot	weak database homology

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