LXL04_025195 | RubberDandelionOmics

Gene overview

LXL04_025195

Reference: OH-1004 Chr: Chr05 Coordinates: 107388490-107389698 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

831 bp · LXL04_025195|LXL04_025195|OH1004|cDNA

ATGAAGAAGAAAGCTTGTGATAGTAGTAGTAATAGTGATAAAGATGATCTAAAGCAGAAAGAAAGGCACATAGTTTCATGGTCTGAAGAGGAGGATAATATATTAAGGGAGCAGATTGGTATCCATGGAACCAATAAGTATGATTTTTTCCTTCGTTTTCAAATTTTCTTGAAATGTTTCAAAACAAATAATGATTTTTCCTTCACTTTCAGTTGGGCAGTTATTGCATCCATGTTTGAGAACAAAACTACAAGGCAATG...

CDS

Download CDS FASTA

831 bp · LXL04_025195|LXL04_025195|OH1004|CDS

ATGAAGAAGAAAGCTTGTGATAGTAGTAGTAATAGTGATAAAGATGATCTAAAGCAGAAAGAAAGGCACATAGTTTCATGGTCTGAAGAGGAGGATAATATATTAAGGGAGCAGATTGGTATCCATGGAACCAATAAGTATGATTTTTTCCTTCGTTTTCAAATTTTCTTGAAATGTTTCAAAACAAATAATGATTTTTCCTTCACTTTCAGTTGGGCAGTTATTGCATCCATGTTTGAGAACAAAACTACAAGGCAATG...

Protein

Download Protein FASTA

276 aa · LXL04_025195|LXL04_025195|OH1004|PROTEIN

MKKKACDSSSNSDKDDLKQKERHIVSWSEEEDNILREQIGIHGTNKYDFFLRFQIFLKCFKTNNDFSFTFSWAVIASMFENKTTRQCRRRWFTYLNSDFKKGGWSHEEDMLLCEAQKIFGNRWTEIAKVVSGRTDNAVKNRFSVLSKRKRKCDDSSSSKENNGGDNCMNSNNKRTRENTKMNKRIEKRKMSEDDICDGRKYPLPNSEFNSPIQVTPLFRSMAEGIPSPQFSESVRKELLAKNTWNGIDNSESDFQNLTIS...

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_025195`
TK1151 ID	TkA06G075900
OH-1004 ID	LXL04_025195
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	81.600
Protein coverage (%)	TK1151 96.311 / OH-1004 96.377 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_025195

Location Chr05:107388490-107389698 (+)

Description Similar to MYB88: Transcription factor MYB88

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g02820`	Transcription factor that binds to DNA in promoters cis- regulatory element 5'-GGCGCGC-3' of cell cycle genes, including cyclins, cyclin-dependent kinases (CDKs), and components of the pre- replication complex.	The Arabidopsis R2R3 MYB proteins FOUR LIPS and MYB88 restrict divisions late in the stomatal cell lineage.2005 · DOI: 10.1105/tpc.105.034116 Regulation of cell proliferation in the stomatal lineage by the Arabidopsis MYB FOUR LIPS via direct targeting of core cell cycle genes.2010 · DOI: 10.1105/tpc.110.074609 Role of the stomatal development regulators FLP/MYB88 in abiotic stress responses.2010 · DOI: 10.1111/j.1365-313x.2010.04364.x Developmental regulation of CYCA2s contributes to tissue-specific proliferation in Arabidopsis.2011 · DOI: 10.1038/emboj.2011.240 FOUR LIPS and MYB88 conditionally restrict the G1/S transition during stomatal formation.2013 · DOI: 10.1093/jxb/ert313 Deep functional redundancy between FAMA and FOUR LIPS in stomatal development.2014 · DOI: 10.1111/tpj.12489 Requirement for A-type cyclin-dependent kinase and cyclins for the terminal division in the stomatal lineage of Arabidopsis.2014 · DOI: 10.1093/jxb/eru139 Transcriptional regulation of PIN genes by FOUR LIPS and MYB88 during Arabidopsis root gravitropism.2015 · DOI: 10.1038/ncomms9822
`At1g14350`	Transcription factor that binds to DNA in promoters cis- regulatory element 5'-GGCGCGC-3' of cell cycle genes, including cyclins, cyclin-dependent kinases (CDKs), and components of the pre- replication complex.	Developmental regulation of CYCA2s contributes to tissue-specific proliferation in Arabidopsis.2011 · DOI: 10.1038/emboj.2011.240

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_025195 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000278 mitotic cell cycle Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009553 embryo sac development Biological Process

GO:0009554 megasporogenesis Biological Process

GO:0009629 response to gravity Biological Process

GO:0009733 response to auxin Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009926 auxin polar transport Biological Process

GO:0010052 guard cell differentiation Biological Process

GO:0010235 guard mother cell cytokinesis Biological Process

KEGG gene cross-reference

ath:AT1G14350

ath:AT2G02820

hsa:4605

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.

Nucleus0.929

Rank 1 · LXL04_025195 · OH-1004

Cytoplasm0.182

Rank 2 · LXL04_025195 · OH-1004

Mitochondrion0.024

Rank 3 · LXL04_025195 · OH-1004

Cell membrane0.017

Rank 4 · LXL04_025195 · OH-1004

Endoplasmic reticulum0.007

Rank 5 · LXL04_025195 · 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-binding26-95 aa

PF13921.13Myb_DNA-bind_627-112 aa

PF00249.38Myb_DNA-binding101-142 aa

PF13921.13Myb_DNA-bind_6104-150 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025195	`PF00249.38`	Myb_DNA-binding	26	95	6.5e-25	87.7
LXL04_025195	`PF13921.13`	Myb_DNA-bind_6	27	112	9.9e-17	61.6
LXL04_025195	`PF00249.38`	Myb_DNA-binding	101	142	6.5e-25	87.7
LXL04_025195	`PF13921.13`	Myb_DNA-bind_6	104	150	9.9e-17	61.6

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.

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Protein	Organism	Description	Identity	Database	Confidence
`F4IRB4`	Arabidopsis thaliana	Transcription factor MYB88	58.125%	Swiss-Prot	moderate database homology
`Q94FL6`	Arabidopsis thaliana	Transcription factor MYB124	63.235%	Swiss-Prot	weak database homology

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