LXL04_026146 | RubberDandelionOmics

Gene overview

LXL04_026146

Reference: OH-1004 Chr: Chr05 Coordinates: 121813663-121818220 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2199 bp · LXL04_026146|LXL04_026146|OH1004|cDNA

ATGACGGATTACCGGCTACAGACTATGAATCACTGGACCTCTGATGAGAACGTTTCCATGATCGATGCCTTCATAACTTCCGACATGGCATCCATCTGGGCCAATCCGGCTGCTTCTCAATCTCATACCAATACGACGGCGGTACCTGTTCCTCCGGCGTCATCATCTGCTTCAACCTCCGATCCGCACAAGATAGTCAACGATTTCAATCCGGATACTTTACAGCAACGCCTCCAGGGGTTGATTGATACGGCACGGGA...

CDS

Download CDS FASTA

2199 bp · LXL04_026146|LXL04_026146|OH1004|CDS

ATGACGGATTACCGGCTACAGACTATGAATCACTGGACCTCTGATGAGAACGTTTCCATGATCGATGCCTTCATAACTTCCGACATGGCATCCATCTGGGCCAATCCGGCTGCTTCTCAATCTCATACCAATACGACGGCGGTACCTGTTCCTCCGGCGTCATCATCTGCTTCAACCTCCGATCCGCACAAGATAGTCAACGATTTCAATCCGGATACTTTACAGCAACGCCTCCAGGGGTTGATTGATACGGCACGGGA...

Protein

Download Protein FASTA

732 aa · LXL04_026146|LXL04_026146|OH1004|PROTEIN

MTDYRLQTMNHWTSDENVSMIDAFITSDMASIWANPAASQSHTNTTAVPVPPASSSASTSDPHKIVNDFNPDTLQQRLQGLIDTARESWTYAIFWQSSHVDYTDTPVLGWGDGYYKGEVNKVKTKPSATSLAEQQYRKKVLRELNSLISGSQAPESDAVDEEVTDTEWFFLISMTQSFVNGNGLPGQAAFSNQPVWVAGRERLMASHCERARQGQGFGLQTIVCIPSADGVIELGSTELIFQSADVMKKVKVSFNFSGDL...

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_026146`
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_026146

Location Chr05:121813663-121818220 (+)

Description Similar to MYC2: Transcription factor MYC2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g32640`	Transcriptional activator.	Arabidopsis AtMYC2 (bHLH) and AtMYB2 (MYB) function as transcriptional activators in abscisic acid signaling.2003 · DOI: 10.1105/tpc.006130 JASMONATE-INSENSITIVE1 encodes a MYC transcription factor essential to discriminate between different jasmonate-regulated defense responses in Arabidopsis.2004 · DOI: 10.1105/tpc.022319 A basic helix-loop-helix transcription factor in Arabidopsis, MYC2, acts as a repressor of blue light-mediated photomorphogenic growth.2005 · DOI: 10.1105/tpc.105.032060 Characterization of JAZ-interacting bHLH transcription factors that regulate jasmonate responses in Arabidopsis.2011 · DOI: 10.1093/jxb/erq408 The Arabidopsis bHLH transcription factors MYC3 and MYC4 are targets of JAZ repressors and act additively with MYC2 in the activation of jasmonate responses.2011 · DOI: 10.1105/tpc.110.080788 The basic helix-loop-helix transcription factor MYC2 directly represses PLETHORA expression during jasmonate-mediated modulation of the root stem cell niche in Arabidopsis.2011 · DOI: 10.1105/tpc.111.089870 Arabidopsis MYC2 interacts with DELLA proteins in regulating sesquiterpene synthase gene expression.2012 · DOI: 10.1105/tpc.112.098749 Arabidopsis basic helix-loop-helix transcription factors MYC2, MYC3, and MYC4 regulate glucosinolate biosynthesis, insect performance, and feeding behavior.2013 · DOI: 10.1105/tpc.113.115139 Role of arabidopsis MYC and MYB homologs in drought- and abscisic acid-regulated gene expression.1997 · DOI: 10.1105/tpc.9.10.1859
`At4g17880`	Transcription factor involved in jasmonic acid (JA) gene regulation.	Characterization of JAZ-interacting bHLH transcription factors that regulate jasmonate responses in Arabidopsis.2011 · DOI: 10.1093/jxb/erq408 The Arabidopsis bHLH transcription factors MYC3 and MYC4 are targets of JAZ repressors and act additively with MYC2 in the activation of jasmonate responses.2011 · DOI: 10.1105/tpc.110.080788 Arabidopsis basic helix-loop-helix transcription factors MYC2, MYC3, and MYC4 regulate glucosinolate biosynthesis, insect performance, and feeding behavior.2013 · DOI: 10.1105/tpc.113.115139

Rice

Reference gene ID	Possible function	Papers / DOI
`Os10g0575000`	Transcriptional activator involved in jasmonate (JA) signaling pathway during spikelet development.	Jasmonic acid regulates spikelet development in rice.2014 · DOI: 10.1038/ncomms4476

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026146 · 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:0006568 L-tryptophan metabolic process Biological Process

GO:0006952 defense response Biological Process

GO:0009269 response to desiccation Biological Process

GO:0009611 response to wounding Biological Process

GO:0009718 anthocyanin-containing compound biosynthetic process Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009738 abscisic acid-activated signaling pathway Biological Process

GO:0009753 response to jasmonic acid Biological Process

GO:0009759 indole glucosinolate biosynthetic process Biological Process

GO:0009963 positive regulation of flavonoid biosynthetic process Biological Process

KEGG gene cross-reference

ath:AT1G32640

ath:AT4G17880

dosa:Os10g0575000

osa:4349484

sly:101261048

sly:544165

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.

Nucleus0.918

Rank 1 · LXL04_026146 · OH-1004

Cytoplasm0.124

Rank 2 · LXL04_026146 · OH-1004

Cell membrane0.056

Rank 3 · LXL04_026146 · OH-1004

Endoplasmic reticulum0.037

Rank 4 · LXL04_026146 · OH-1004

Plastid0.019

Rank 5 · LXL04_026146 · 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.

PF14215.13bHLH-MYC_N74-254 aa

PF00010.32HLH502-548 aa

PF23177.2bHLH_IRO3505-571 aa

PF22754.5bHLH-TF_ACT-like_plant605-676 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026146	`PF14215.13`	bHLH-MYC_N	74	254	1.5e-54	185.7
LXL04_026146	`PF00010.32`	HLH	502	548	2.7e-11	43.8
LXL04_026146	`PF23177.2`	bHLH_IRO3	505	571	5.6e-11	43.4
LXL04_026146	`PF22754.5`	bHLH-TF_ACT-like_plant	605	676	4.6e-06	27.4

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
`Q39204`	Arabidopsis thaliana	Transcription factor MYC2	51.000%	Swiss-Prot	strong database homology
`O49687`	Arabidopsis thaliana	Transcription factor MYC4	62.313%	Swiss-Prot	weak database homology
`Q336P5`	Oryza sativa subsp. japonica	Transcription factor MYC2	46.038%	Swiss-Prot	moderate database homology

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