LXL04_002977 | RubberDandelionOmics

Gene overview

LXL04_002977

Reference: OH-1004 Chr: Chr01 Coordinates: 63956502-63960780 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

648 bp · LXL04_002977|LXL04_002977|OH1004|cDNA

ATGTATTCCTACAATAGCGGTAGTCAACCACCATCTTTTGGAGATGTGAGGCAAATCGACGTTTCTGAACCTTCCTACGGTATTCCGATGGATAGTGATGGACAGCCACCATCGGTTAACGACGTCGGTAGAAGAGAAGCATCTCAAAGTGAGGCATCGTTCACCCGGTATGAGGGTCCTGATGCGCTTGAAGTTCAGCAGTATAATCTGGTCAACTCATCCGCAGCACGGATCcctgaagaagtgaagatccCTGTGAT...

CDS

Download CDS FASTA

648 bp · LXL04_002977|LXL04_002977|OH1004|CDS

ATGTATTCCTACAATAGCGGTAGTCAACCACCATCTTTTGGAGATGTGAGGCAAATCGACGTTTCTGAACCTTCCTACGGTATTCCGATGGATAGTGATGGACAGCCACCATCGGTTAACGACGTCGGTAGAAGAGAAGCATCTCAAAGTGAGGCATCGTTCACCCGGTATGAGGGTCCTGATGCGCTTGAAGTTCAGCAGTATAATCTGGTCAACTCATCCGCAGCACGGATCCCTGAAGAAGTGAAGATCCCTGTGAT...

Protein

Download Protein FASTA

215 aa · LXL04_002977|LXL04_002977|OH1004|PROTEIN

MYSYNSGSQPPSFGDVRQIDVSEPSYGIPMDSDGQPPSVNDVGRREASQSEASFTRYEGPDALEVQQYNLVNSSAARIPEEVKIPVISTPSCEKNDGLRKGQWTVEEDFQLISCISKYGDKNWRKLPKNPWTEDEHKLFLLGLQIVGKGDWRGISRNFVKTRTPTQVASHAQKYFRRQSNLNRRRRRSSLFDITTDSVAVMPTDEQKVHEVYFAG

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_002977`
TK1151 ID	TkA01G407130
OH-1004 ID	LXL04_002977
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	80.900
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_002977

Location Chr01:63956502-63960780 (+)

Description Similar to KUA1: Transcription factor KUA1

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
`At5g08520`	Transcription activator that coordinates abscisic acid (ABA) biosynthesis and signaling-related genes via binding to the specific promoter motif 5'-(A/T)AACCAT-3'.	Salt-Related MYB1 Coordinates Abscisic Acid Biosynthesis and Signaling during Salt Stress in Arabidopsis.2015 · DOI: 10.1104/pp.15.00962

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

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Functional annotation source: OH1004 · LXL04_002977 · 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:0009414 response to water deprivation Biological Process

GO:0009646 response to absence of light Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009723 response to ethylene Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009738 abscisic acid-activated signaling pathway Biological Process

GO:0009739 response to gibberellin Biological Process

GO:0009744 response to sucrose Biological Process

GO:0009751 response to salicylic acid Biological Process

KEGG gene cross-reference

ath:AT5G08520

ath:AT5G47390

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.

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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.

Nucleus0.908

Rank 1 · LXL04_002977 · OH-1004

Cytoplasm0.166

Rank 2 · LXL04_002977 · OH-1004

Cell membrane0.033

Rank 3 · LXL04_002977 · OH-1004

Endoplasmic reticulum0.019

Rank 4 · LXL04_002977 · OH-1004

Mitochondrion0.012

Rank 5 · LXL04_002977 · 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-binding100-128 aa

PF00249.38Myb_DNA-binding128-175 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002977	`PF00249.38`	Myb_DNA-binding	100	128	3.2e-20	72.7
LXL04_002977	`PF00249.38`	Myb_DNA-binding	128	175	3.2e-20	72.7

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
`Q9LVS0`	Arabidopsis thaliana	Transcription factor KUA1	59.091%	Swiss-Prot	moderate database homology
`Q9FNN6`	Arabidopsis thaliana	Transcription factor SRM1	75.385%	Swiss-Prot	weak database homology
`Q7XC57`	Oryza sativa subsp. japonica	Transcription factor MYBS3	73.973%	Swiss-Prot	weak database homology
`Q8LH59`	Oryza sativa subsp. japonica	Transcription factor MYBS1	74.242%	Swiss-Prot	weak database homology

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