LXL04_026008 | RubberDandelionOmics

Gene overview

LXL04_026008

Reference: OH-1004 Chr: Chr05 Coordinates: 119710528-119711818 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

720 bp · LXL04_026008|LXL04_026008|OH1004|cDNA

ATGTGTGGTGGAGCAGTAATCTCCGACGCCGACCCTGTCTTCGAGCGCAACCGGAAGCTGACGGCCGACGATCTCTGGTCTGAGTTTGACACCTCCGATCTCTTCGGCTGGGATTTCAAACCGCAAACACTACGTTCCGTCACTGAAGTTACTACCAACGACAAAACTGTTTTAAATCACTACAAAATCATCAATGAAGGTATCAACTTCATCACGCTTAAACAGATACGAATTATAATCACCATTGCAGACGAAAAAGC...

CDS

Download CDS FASTA

720 bp · LXL04_026008|LXL04_026008|OH1004|CDS

ATGTGTGGTGGAGCAGTAATCTCCGACGCCGACCCTGTCTTCGAGCGCAACCGGAAGCTGACGGCCGACGATCTCTGGTCTGAGTTTGACACCTCCGATCTCTTCGGCTGGGATTTCAAACCGCAAACACTACGTTCCGTCACTGAAGTTACTACCAACGACAAAACTGTTTTAAATCACTACAAAATCATCAATGAAGGTATCAACTTCATCACGCTTAAACAGATACGAATTATAATCACCATTGCAGACGAAAAAGC...

Protein

Download Protein FASTA

239 aa · LXL04_026008|LXL04_026008|OH1004|PROTEIN

MCGGAVISDADPVFERNRKLTADDLWSEFDTSDLFGWDFKPQTLRSVTEVTTNDKTVLNHYKIINEGINFITLKQIRIIITIADEKARKPIEKKPKPRKNKYRGIRQRPWGKWAAEIRDPQKGVRVWLGTFNTAEEAALAYDDAAKRIRGGKAKLNFPLPPAKKLCTESTQSIVREPPPPPALLSYEQFQNCMADEYELKEQISNLETFLGLDHESTRFGGLGGESDNVWMMDDYPVII

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_026008`
TK1151 ID	TkA06G031980
OH-1004 ID	LXL04_026008
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	90.000
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_026008

Location Chr05:119710528-119711818 (-)

Description Similar to RAP2-3: Ethylene-responsive transcription factor RAP2-3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g16770`	Probably acts as a transcriptional activator.	No verified direct reference in this release
`At2g47520`	Transcriptional activator that binds specifically to the cis- acting element GCC box 5'-AGCCGCC-3', or to the CRT/DRE element 5'- [AG]CCGAC-3'.	HRE1 and HRE2, two hypoxia-inducible ethylene response factors, affect anaerobic responses in Arabidopsis thaliana.2010 · DOI: 10.1111/j.1365-313x.2010.04149.x The hypoxia responsive transcription factor genes ERF71/HRE2 and ERF73/HRE1 of Arabidopsis are differentially regulated by ethylene.2011 · DOI: 10.1111/j.1399-3054.2011.01486.x AtERF71/HRE2 transcription factor mediates osmotic stress response as well as hypoxia response in Arabidopsis.2011 · DOI: 10.1016/j.bbrc.2011.09.039 Homeostatic response to hypoxia is regulated by the N-end rule pathway in plants.2011 · DOI: 10.1038/nature10534 Arabidopsis AtERF71/HRE2 functions as transcriptional activator via cis-acting GCC box or DRE/CRT element and is involved in root development through regulation of root cell expansion.2015 · DOI: 10.1007/s00299-014-1701-9 Hypoxia and the group VII ethylene response transcription factor HRE2 promote adventitious root elongation in Arabidopsis.2019 · DOI: 10.1111/plb.12873 The possible roles of AtERF71 in the defense response against the Fusarium graminearum .2018 · DOI: 10.5511/plantbiotechnology.18.0501b
`At2g33710`	Probably acts as a transcriptional activator.	No verified direct reference in this release
`At1g72360`	Transcriptional activator involved in the hypoxic stress response.	HRE1 and HRE2, two hypoxia-inducible ethylene response factors, affect anaerobic responses in Arabidopsis thaliana.2010 · DOI: 10.1111/j.1365-313x.2010.04149.x The AP2/ERF transcription factor AtERF73/HRE1 modulates ethylene responses during hypoxia in Arabidopsis.2011 · DOI: 10.1104/pp.111.172486 The hypoxia responsive transcription factor genes ERF71/HRE2 and ERF73/HRE1 of Arabidopsis are differentially regulated by ethylene.2011 · DOI: 10.1111/j.1399-3054.2011.01486.x Arabidopsis HRE1α, a splicing variant of AtERF73/HRE1, functions as a nuclear transcription activator in hypoxia response and root development.2014 · DOI: 10.1007/s00299-014-1613-8 Two Alternative Splicing Variants of AtERF73/HRE1, HRE1α and HRE1β, Have Differential Transactivation Activities in Arabidopsis.2020 · DOI: 10.3390/ijms21196984

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0782700`	Probable transcriptional activator that may be involved in defense signaling pathway.	BWMK1, a rice mitogen-activated protein kinase, locates in the nucleus and mediates pathogenesis-related gene expression by activation of a transcription factor.2003 · DOI: 10.1104/pp.103.023176

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026008 · 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:0006355 regulation of DNA-templated transcription Biological Process

GO:0006952 defense response Biological Process

GO:0009414 response to water deprivation Biological Process

GO:0009723 response to ethylene Biological Process

GO:0009735 response to cytokinin Biological Process

GO:0009753 response to jasmonic acid Biological Process

GO:0009873 ethylene-activated signaling pathway Biological Process

GO:0010286 heat acclimation Biological Process

GO:0012501 programmed cell death Biological Process

GO:0034059 response to anoxia Biological Process

KEGG gene cross-reference

ath:AT1G72360

ath:AT2G33710

ath:AT2G47520

ath:AT3G16770

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.

Nucleus0.954

Rank 1 · LXL04_026008 · OH-1004

Cytoplasm0.102

Rank 2 · LXL04_026008 · OH-1004

Cell membrane0.030

Rank 3 · LXL04_026008 · OH-1004

Endoplasmic reticulum0.024

Rank 4 · LXL04_026008 · OH-1004

Plastid0.019

Rank 5 · LXL04_026008 · 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.

PF00847.27AP2101-150 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026008	`PF00847.27`	AP2	101	150	1.5e-14	54.8

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
`P42736`	Arabidopsis thaliana	Ethylene-responsive transcription factor RAP2-3	42.222%	Swiss-Prot	moderate database homology
`O22259`	Arabidopsis thaliana	Ethylene-responsive transcription factor ERF071	45.395%	Swiss-Prot	moderate database homology
`P93007`	Arabidopsis thaliana	Ethylene-responsive transcription factor ERF112	64.198%	Swiss-Prot	weak database homology
`Q8H0T5`	Arabidopsis thaliana	Ethylene-responsive transcription factor ERF073	42.683%	Swiss-Prot	moderate database homology
`Q6K7E6`	Oryza sativa subsp. japonica	Ethylene-responsive transcription factor 1	66.250%	Swiss-Prot	weak database homology

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