LXL04_024981 | RubberDandelionOmics

Gene overview

LXL04_024981

Reference: OH-1004 Chr: Chr05 Coordinates: 103435532-103437893 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1068 bp · LXL04_024981|LXL04_024981|OH1004|cDNA

ATGAGGGCGGCTAAGAACATGAATCATGAAGAAGAGTTTGATCAGCTAAAAAGAGGGCCATGGACACTTGAGGAAGACAATCTTCTTATCCGTTATATCAATTGCCATGGTGAAGGTCGTTGGAATTCGCTAGCAAAATCTGCAGGATTGAAAAGAACAGGAAAAAGTTGTAGATTAAGATGGTTGAATTATCTAAAACCAGATACCAAGCGTGGAAATCTCACACCACAAGAACAGCTCATGATCCTCGAGCTTCATTC...

CDS

Download CDS FASTA

1068 bp · LXL04_024981|LXL04_024981|OH1004|CDS

ATGAGGGCGGCTAAGAACATGAATCATGAAGAAGAGTTTGATCAGCTAAAAAGAGGGCCATGGACACTTGAGGAAGACAATCTTCTTATCCGTTATATCAATTGCCATGGTGAAGGTCGTTGGAATTCGCTAGCAAAATCTGCAGGATTGAAAAGAACAGGAAAAAGTTGTAGATTAAGATGGTTGAATTATCTAAAACCAGATACCAAGCGTGGAAATCTCACACCACAAGAACAGCTCATGATCCTCGAGCTTCATTC...

Protein

Download Protein FASTA

355 aa · LXL04_024981|LXL04_024981|OH1004|PROTEIN

MRAAKNMNHEEEFDQLKRGPWTLEEDNLLIRYINCHGEGRWNSLAKSAGLKRTGKSCRLRWLNYLKPDTKRGNLTPQEQLMILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKQARHLKIDCSSKRFVDALHRFWMPRLLEKVEQTSSSSSSTSTASISTMKTEQNKLSPNSQSDQTIIAESSTNSRSSIDRSSDSSGKMLPQLPEMTTQLYGDTAFDDSLIQHHDCYNVDIGGLEMMGYGQPDDMSSLNFQKAD...

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_024981`
TK1151 ID	TkA06G090930
OH-1004 ID	LXL04_024981
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	100.000
Protein coverage (%)	TK1151 91.045 / OH-1004 51.549 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_024981

Location Chr05:103435532-103437893 (+)

Description Similar to MYB62: Transcription factor MYB62

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g68320`	Transcription repressor of phosphate (Pi) starvation-induced genes.	Phosphate starvation responses and gibberellic acid biosynthesis are regulated by the MYB62 transcription factor in Arabidopsis.2009 · DOI: 10.1093/mp/ssn081
`At5g49620`	Transcription factor MYB78.	No verified direct reference in this release
`At3g06490`	Transcription factor contributing to the regulation of stamen maturation and male fertility in response to jasmonate signaling.	The BOTRYTIS SUSCEPTIBLE1 gene encodes an R2R3MYB transcription factor protein that is required for biotic and abiotic stress responses in Arabidopsis.2003 · DOI: 10.1105/tpc.014167 MYB108 acts together with MYB24 to regulate jasmonate-mediated stamen maturation in Arabidopsis.2009 · DOI: 10.1104/pp.108.132597 The Arabidopsis Botrytis Susceptible1 Interactor defines a subclass of RING E3 ligases that regulate pathogen and stress responses.2010 · DOI: 10.1104/pp.110.163915 Regulation of ABA dependent wound induced spreading cell death by MYB108.2013 · DOI: 10.1111/nph.12456

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0315400`	Transcription factor involved in abiotic stress responses.	A R2R3-type MYB gene, OsMYB2, is involved in salt, cold, and dehydration tolerance in rice.2012 · DOI: 10.1093/jxb/err431
`Os11g0684000`	Jasmonate- (JA-) responsive transcription factor that promotes AGO18, AGO1a and AGO1b expression by binding to AG-motif-like elements in their promoters.	A novel jasmonic acid-inducible rice myb gene associates with fungal infection and host cell death.2001 · DOI: 10.1094/mpmi.2001.14.4.527 Jasmonate Signaling Enhances RNA Silencing and Antiviral Defense in Rice.2020 · DOI: 10.1016/j.chom.2020.05.001

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_024981 · 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:0006952 defense response Biological Process

GO:0009409 response to cold Biological Process

GO:0009620 response to fungus Biological Process

GO:0009686 gibberellin biosynthetic process Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009740 gibberellic acid mediated signaling pathway Biological Process

GO:0009753 response to jasmonic acid Biological Process

GO:0010015 root morphogenesis Biological Process

GO:0010373 negative regulation of gibberellin biosynthetic process Biological Process

GO:0012501 programmed cell death Biological Process

KEGG gene cross-reference

ath:AT1G68320

ath:AT3G06490

ath:AT5G49620

dosa:Os03g0315400

dosa:Os11g0684000

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.

Nucleus0.940

Rank 1 · LXL04_024981 · OH-1004

Cytoplasm0.188

Rank 2 · LXL04_024981 · OH-1004

Mitochondrion0.024

Rank 3 · LXL04_024981 · OH-1004

Cell membrane0.019

Rank 4 · LXL04_024981 · OH-1004

Endoplasmic reticulum0.009

Rank 5 · LXL04_024981 · 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-binding18-65 aa

PF13921.13Myb_DNA-bind_621-78 aa

PF00249.38Myb_DNA-binding71-114 aa

PF13921.13Myb_DNA-bind_675-120 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_024981	`PF00249.38`	Myb_DNA-binding	18	65	3.2e-34	117.5
LXL04_024981	`PF13921.13`	Myb_DNA-bind_6	21	78	3.8e-20	72.5
LXL04_024981	`PF00249.38`	Myb_DNA-binding	71	114	3.2e-34	117.5
LXL04_024981	`PF13921.13`	Myb_DNA-bind_6	75	120	3.8e-20	72.5

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
`Q9C9G7`	Arabidopsis thaliana	Transcription factor MYB62	51.471%	Swiss-Prot	strong database homology
`Q9FGY3`	Arabidopsis thaliana	Transcription factor MYB78	54.502%	Swiss-Prot	moderate database homology
`Q9LDE1`	Arabidopsis thaliana	Transcription factor MYB108	68.919%	Swiss-Prot	weak database homology
`Q10MB4`	Oryza sativa subsp. japonica	Transcription factor MYB2	70.667%	Swiss-Prot	weak database homology
`Q2QZJ8`	Oryza sativa subsp. japonica	Transcription factor JAMYB	64.242%	Swiss-Prot	weak database homology

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