LXL04_024045 | RubberDandelionOmics

Gene overview

LXL04_024045

Reference: OH-1004 Chr: Chr05 Coordinates: 78597409-78598952 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1119 bp · LXL04_024045|LXL04_024045|OH1004|cDNA

ATGGAACTCGAAAGAATGGCACCCACCTCGGGTGATGACGAAAACCAGACACGAGTCAAAGTGACACCTATCGATTGTTGGTGTCAGCCGACTTTTCTCTCTCACCGGATCCGTCCAAACGACATGACGAACGCAGTGACACCACCGGCGATGGGGCCATCCTCCTACGCGTCGCCTTCTCATTCGCACAATCCACCCCTCCAAgctttttgttgttttataGTTCTCACAGAAAGCGAGGGCTGCGGTCAATACTCAAT...

CDS

Download CDS FASTA

1119 bp · LXL04_024045|LXL04_024045|OH1004|CDS

ATGGAACTCGAAAGAATGGCACCCACCTCGGGTGATGACGAAAACCAGACACGAGTCAAAGTGACACCTATCGATTGTTGGTGTCAGCCGACTTTTCTCTCTCACCGGATCCGTCCAAACGACATGACGAACGCAGTGACACCACCGGCGATGGGGCCATCCTCCTACGCGTCGCCTTCTCATTCGCACAATCCACCCCTCCAAGCTTTTTGTTGTTTTATAGTTCTCACAGAAAGCGAGGGCTGCGGTCAATACTCAAT...

Protein

Download Protein FASTA

372 aa · LXL04_024045|LXL04_024045|OH1004|PROTEIN

MELERMAPTSGDDENQTRVKVTPIDCWCQPTFLSHRIRPNDMTNAVTPPAMGPSSYASPSHSHNPPLQAFCCFIVLTESEGCGQYSIPQEQPRIKAFLSKQLILSHARSSKPRFQVPDSILHPIYVPIIAEIDLYKFDPWQLPDMALYGEKEWYFFSPRDRKYPNGSRPNRAAGTGYWKATGADKPIGKPKPVGIKKALVFYAGKAPRGVKTNWIMHEYRLANVDRSAGKRNNNLRLDDWVLCRIYNKKGTLEKHYVNDN...

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_024045`
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_024045

Location Chr05:78597409-78598952 (-)

Description Similar to NAC002: NAC domain-containing protein 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g01720`	NAC domain-containing protein 2.	No verified direct reference in this release
`At5g08790`	Involved in disease resistance response.	The transcription factor ATAF2 represses the expression of pathogenesis-related genes in Arabidopsis.2005 · DOI: 10.1111/j.1365-313x.2005.02488.x Interaction of the Tobacco mosaic virus replicase protein with a NAC domain transcription factor is associated with the suppression of systemic host defenses.2009 · DOI: 10.1128/jvi.00941-09 ATAF2, a NAC transcription factor, binds to the promoter and regulates NIT2 gene expression involved in auxin biosynthesis.2012 · DOI: 10.1007/s10059-012-0122-2 ATAF2 integrates Arabidopsis brassinosteroid inactivation and seedling photomorphogenesis.2015 · DOI: 10.1242/dev.124347
`At5g63790`	May be involved in regulation of seed germination under flooding.	No verified direct reference in this release
`At1g77450`	Transcriptional activator that positively regulates age-dependent senescence, dark-induced leaf senescence and stress-induced senescence.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0884300`	Transcription activator that binds to the promoter of the stress response gene LEA19.	Functional analysis of a NAC-type transcription factor OsNAC6 involved in abiotic and biotic stress-responsive gene expression in rice.2007 · DOI: 10.1111/j.1365-313x.2007.03168.x Characterization of transcription factor gene SNAC2 conferring cold and salt tolerance in rice.2008 · DOI: 10.1007/s11103-008-9309-5 The histone deacetylase OsHDAC1 epigenetically regulates the OsNAC6 gene that controls seedling root growth in rice.2009 · DOI: 10.1111/j.1365-313x.2009.03908.x The abiotic stress-responsive NAC-type transcription factor OsNAC5 regulates stress-inducible genes and stress tolerance in rice.2010 · DOI: 10.1007/s00438-010-0557-0 The rice OsNAC6 transcription factor orchestrates multiple molecular mechanisms involving root structural adaptions and nicotianamine biosynthesis for drought tolerance.2017 · DOI: 10.1111/pbi.12673

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_024045 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0001666 response to hypoxia Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0008361 regulation of cell size Biological Process

GO:0009409 response to cold Biological Process

GO:0009416 response to light stimulus Biological Process

GO:0009611 response to wounding Biological Process

GO:0009620 response to fungus Biological Process

GO:0009744 response to sucrose Biological Process

GO:0009751 response to salicylic acid Biological Process

GO:0009753 response to jasmonic acid Biological Process

GO:0009788 negative regulation of abscisic acid-activated signaling pathway Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

KEGG gene cross-reference

ath:AT1G01720

ath:AT1G77450

ath:AT5G08790

ath:AT5G63790

dosa:Os01g0884300

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.

Nucleus0.881

Rank 1 · LXL04_024045 · OH-1004

Cytoplasm0.182

Rank 2 · LXL04_024045 · OH-1004

Cell membrane0.055

Rank 3 · LXL04_024045 · OH-1004

Endoplasmic reticulum0.051

Rank 4 · LXL04_024045 · OH-1004

Plastid0.019

Rank 5 · LXL04_024045 · 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.

PF02365.21NAM123-221 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_024045	`PF02365.21`	NAM	123	221	1.6e-35	123.0

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
`Q39013`	Arabidopsis thaliana	NAC domain-containing protein 2	60.806%	Swiss-Prot	moderate database homology
`Q9C598`	Arabidopsis thaliana	Protein ATAF2	55.597%	Swiss-Prot	moderate database homology
`Q8H115`	Arabidopsis thaliana	NAC domain-containing protein 102	54.826%	Swiss-Prot	moderate database homology
`Q9CAR0`	Arabidopsis thaliana	NAC transcription factor 32	60.538%	Swiss-Prot	moderate database homology
`Q7F2L3`	Oryza sativa subsp. japonica	NAC domain-containing protein 48	56.667%	Swiss-Prot	moderate database homology

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