LXL04_012907 | RubberDandelionOmics

Gene overview

LXL04_012907

Reference: OH-1004 Chr: Chr03 Coordinates: 20722159-20727581 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1893 bp · LXL04_012907|LXL04_012907|OH1004|cDNA

ATGATAGAAGAGTATAGCCAGAAGATCGACCTGGAAGCATCCACGACTCTCTGGAATAAAAGTCGTCAGTTTGGACCAACTCAAGCCCGCTTTTACTTTCTCCGGATCACATACCTCAATGAAACCCTAATCAACACAATTCCTCAATTCATTTCAAAATTCTCTCAAATTTCTTCTACAAATCTTATTCTGGTGATTGATTCGGTAACACCCACCCCAACAACGGCTTCTTCACTCGCTCCTGGTTTTAGGTTTCATCC...

CDS

Download CDS FASTA

1893 bp · LXL04_012907|LXL04_012907|OH1004|CDS

ATGATAGAAGAGTATAGCCAGAAGATCGACCTGGAAGCATCCACGACTCTCTGGAATAAAAGTCGTCAGTTTGGACCAACTCAAGCCCGCTTTTACTTTCTCCGGATCACATACCTCAATGAAACCCTAATCAACACAATTCCTCAATTCATTTCAAAATTCTCTCAAATTTCTTCTACAAATCTTATTCTGGTGATTGATTCGGTAACACCCACCCCAACAACGGCTTCTTCACTCGCTCCTGGTTTTAGGTTTCATCC...

Protein

Download Protein FASTA

630 aa · LXL04_012907|LXL04_012907|OH1004|PROTEIN

MIEEYSQKIDLEASTTLWNKSRQFGPTQARFYFLRITYLNETLINTIPQFISKFSQISSTNLILVIDSVTPTPTTASSLAPGFRFHPTDEELVRYYLRRKICGKPFRFDAISDVDVYKVEPWDLPGLSRLKSRDLEWYFFSVLDKKYGNGSRTNRATDKGYWKTTGKDRSVYHRSQLVGMKKTLVYHIGRAPKGERTNWVMHEYRLIDQELEKAGIIQDSFVLCRIFRKSGSGPKNGEQYGAPFVDEEWEDEDELVMVPK...

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_012907`
TK1151 ID	TkA02G531160
OH-1004 ID	LXL04_012907
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.300
Protein coverage (%)	TK1151 99.649 / OH-1004 90.000 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_012907

Location Chr03:20722159-20727581 (-)

Description Similar to NAC053: NAC domain-containing protein 53

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g10500`	Transcriptional activator activated by proteolytic cleavage through regulated intramembrane proteolysis (RIP).	A NAC transcription factor NTL4 promotes reactive oxygen species production during drought-induced leaf senescence in Arabidopsis.2012 · DOI: 10.1111/j.1365-313x.2012.04932.x The Arabidopsis NAC transcription factor NTL4 participates in a positive feedback loop that induces programmed cell death under heat stress conditions.2014 · DOI: 10.1016/j.plantsci.2014.07.003
`At5g04410`	Transcriptional activator activated by proteolytic cleavage through regulated intramembrane proteolysis (RIP) (By similarity).	No verified direct reference in this release
`At3g10480`	Transcriptional repressor that binds to the motif 5'- (C/T)A(C/A)G-3' in the promoter of target genes.	Two novel NAC transcription factors regulate gene expression and flowering time by associating with the histone demethylase JMJ14.2015 · DOI: 10.1093/nar/gku1382 C-terminal domains of a histone demethylase interact with a pair of transcription factors and mediate specific chromatin association.2015 · DOI: 10.1038/celldisc.2015.3
`At3g10490`	Transcriptional repressor that binds to the motif 5'- (C/T)A(C/A)G-3' in the promoter of target genes.	Two novel NAC transcription factors regulate gene expression and flowering time by associating with the histone demethylase JMJ14.2015 · DOI: 10.1093/nar/gku1382 C-terminal domains of a histone demethylase interact with a pair of transcription factors and mediate specific chromatin association.2015 · DOI: 10.1038/celldisc.2015.3
`At5g09330`	Transcriptional regulator that binds specific DNA sequences on the promoter regions of target genes.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_012907 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

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

GO:0002237 response to molecule of bacterial origin Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006952 defense response Biological Process

GO:0009555 pollen development Biological Process

GO:0009644 response to high light intensity Biological Process

GO:0009819 drought recovery Biological Process

GO:0009908 flower development Biological Process

GO:0009962 regulation of flavonoid biosynthetic process Biological Process

GO:0010150 leaf senescence Biological Process

GO:0010228 vegetative to reproductive phase transition of meristem Biological Process

GO:0010267 ta-siRNA processing Biological Process

KEGG gene cross-reference

ath:AT3G10480

ath:AT3G10490

ath:AT3G10500

ath:AT5G04410

ath:AT5G09330

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.

Nucleus0.922

Rank 1 · LXL04_012907 · OH-1004

Cytoplasm0.121

Rank 2 · LXL04_012907 · OH-1004

Cell membrane0.062

Rank 3 · LXL04_012907 · OH-1004

Endoplasmic reticulum0.060

Rank 4 · LXL04_012907 · OH-1004

Plastid0.019

Rank 5 · LXL04_012907 · 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.

PF02365.21NAM81-206 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012907	`PF02365.21`	NAM	81	206	1.1e-47	162.3

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
`Q949N0`	Arabidopsis thaliana	NAC domain-containing protein 53	44.349%	Swiss-Prot	moderate database homology
`Q84K00`	Arabidopsis thaliana	NAC domain-containing protein 78	42.617%	Swiss-Prot	moderate database homology
`Q9SQX9`	Arabidopsis thaliana	NAC domain containing protein 50	67.403%	Swiss-Prot	weak database homology
`Q9SQY0`	Arabidopsis thaliana	NAC domain containing protein 52	65.079%	Swiss-Prot	weak database homology
`Q9FY82`	Arabidopsis thaliana	NAC domain-containing protein 82	58.115%	Swiss-Prot	weak database homology

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