LXL04_026288 | RubberDandelionOmics

Gene overview

LXL04_026288

Reference: OH-1004 Chr: Chr05 Coordinates: 124410964-124411849 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

759 bp · LXL04_026288|LXL04_026288|OH1004|cDNA

ATGGGAAGAGCACCATGTTGTTCAAAGGTGGGTTTACACAGAGGAGCATGGTCGACTGAAGAAGATAAACTCCTCACGGAGTACATTCAAACCAACGGCGAAGGTCAATGGCGTTCTTTACCTTCAAAAGCTGGTTTACTTAGATGCGGAAAGAGTTGCAGGTTGAGATGGATGAATTATCTCCGGCCTGGTATCAAGCGAGGAAACTTCACCCCCGATGAGGATGAGCTTATAATTAAGCTTCATTCTATCCATGGCAA...

CDS

Download CDS FASTA

759 bp · LXL04_026288|LXL04_026288|OH1004|CDS

ATGGGAAGAGCACCATGTTGTTCAAAGGTGGGTTTACACAGAGGAGCATGGTCGACTGAAGAAGATAAACTCCTCACGGAGTACATTCAAACCAACGGCGAAGGTCAATGGCGTTCTTTACCTTCAAAAGCTGGTTTACTTAGATGCGGAAAGAGTTGCAGGTTGAGATGGATGAATTATCTCCGGCCTGGTATCAAGCGAGGAAACTTCACCCCCGATGAGGATGAGCTTATAATTAAGCTTCATTCTATCCATGGCAA...

Protein

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252 aa · LXL04_026288|LXL04_026288|OH1004|PROTEIN

MGRAPCCSKVGLHRGAWSTEEDKLLTEYIQTNGEGQWRSLPSKAGLLRCGKSCRLRWMNYLRPGIKRGNFTPDEDELIIKLHSIHGNRWSFIATELAGRTDNEVKNHWNSHLKRKALDGGENDVDDSKNKKRRRNKKKADQKSRKVKIMEKPEEIITVPVPEPTSSSSSFPLLQSASSSSITYEGDGDLLADMDFSWAPLLEMDGGARMDGHDDLDIRFDGFDFLALEDEESNMLEKLYDECLHLLQDVEGV

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_026288`
TK1151 ID	TkA06G016390
OH-1004 ID	LXL04_026288
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	96.400
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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_026288

Location Chr05:124410964-124411849 (+)

Description Similar to MYB111: Transcription factor MYB111

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g49330`	Flavonol-specific transcription activator involved in the regulation of several genes of flavonoid biosynthesis.	Differential regulation of closely related R2R3-MYB transcription factors controls flavonol accumulation in different parts of the Arabidopsis thaliana seedling.2007 · DOI: 10.1111/j.1365-313x.2007.03078.x The Arabidopsis bZIP transcription factor HY5 regulates expression of the PFG1/MYB12 gene in response to light and ultraviolet-B radiation.2010 · DOI: 10.1111/j.1365-3040.2009.02061.x Analysis of PRODUCTION OF FLAVONOL GLYCOSIDES-dependent flavonol glycoside accumulation in Arabidopsis thaliana plants reveals MYB11-, MYB12- and MYB111-independent flavonol glycoside accumulation.2010 · DOI: 10.1111/j.1469-8137.2010.03421.x
`At1g22640`	Transcription factor MYB3.	No verified direct reference in this release
`At2g16720`	Transcription factor involved in the negative regulation of flavonol biosynthesis.	AtMYB7, a new player in the regulation of UV-sunscreens in Arabidopsis thaliana.2014 · DOI: 10.1093/pcp/pct187 AtMyb7, a subgroup 4 R2R3 Myb, negatively regulates ABA-induced inhibition of seed germination by blocking the expression of the bZIP transcription factor ABI5.2015 · DOI: 10.1111/pce.12415

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026288 · 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:0009416 response to light stimulus Biological Process

GO:0009611 response to wounding Biological Process

GO:0009800 cinnamic acid biosynthetic process Biological Process

GO:0009813 flavonoid biosynthetic process Biological Process

GO:0009892 negative regulation of metabolic process Biological Process

GO:0010224 response to UV-B Biological Process

GO:0010597 green leaf volatile biosynthetic process Biological Process

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

GO:0051555 flavonol biosynthetic process Biological Process

GO:1900384 regulation of flavonol biosynthetic process Biological Process

KEGG gene cross-reference

ath:AT1G22640

ath:AT2G16720

ath:AT5G49330

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

Open Annotation Module

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.

Nucleus0.965

Rank 1 · LXL04_026288 · OH-1004

Cytoplasm0.117

Rank 2 · LXL04_026288 · OH-1004

Cell membrane0.019

Rank 3 · LXL04_026288 · OH-1004

Mitochondrion0.013

Rank 4 · LXL04_026288 · OH-1004

Endoplasmic reticulum0.009

Rank 5 · LXL04_026288 · 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-binding14-61 aa

PF13921.13Myb_DNA-bind_617-76 aa

PF00249.38Myb_DNA-binding67-112 aa

PF13921.13Myb_DNA-bind_670-115 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026288	`PF00249.38`	Myb_DNA-binding	14	61	1.1e-35	122.1
LXL04_026288	`PF13921.13`	Myb_DNA-bind_6	17	76	4.9e-20	72.2
LXL04_026288	`PF00249.38`	Myb_DNA-binding	67	112	1.1e-35	122.1
LXL04_026288	`PF13921.13`	Myb_DNA-bind_6	70	115	4.9e-20	72.2

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9FJ07`	Arabidopsis thaliana	Transcription factor MYB111	75.652%	Swiss-Prot	weak database homology
`Q9S9K9`	Arabidopsis thaliana	Transcription factor MYB3	50.000%	Swiss-Prot	strong database homology
`Q42379`	Arabidopsis thaliana	Transcription factor MYB7	58.491%	Swiss-Prot	moderate database homology

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