LXL04_005456 | RubberDandelionOmics

Gene overview

LXL04_005456

Reference: OH-1004 Chr: Chr01 Coordinates: 164549986-164552593 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1236 bp · LXL04_005456|LXL04_005456|OH1004|cDNA

ATGGATTCAGTTTCTACAAAATCCGAAGCAAGTCTAAGAAGGCGAAACTCATTTGGTGGAGTAAGTGATGCATCATCAGGTTCAGTTGTGAAAAGACGACGTAGATGTCCATCTATGCTAGCGTTGAACGATCACAAGACCATTAATGGTGAGGGAAACCAACTTCAAACTTCTACAACACCGACAGTTGATCAAAGTAACACTGacacaaccacaaccacaaccaccagTGTCACTACCCCAACTACCGTGAAAAGAAG...

CDS

Download CDS FASTA

1236 bp · LXL04_005456|LXL04_005456|OH1004|CDS

ATGGATTCAGTTTCTACAAAATCCGAAGCAAGTCTAAGAAGGCGAAACTCATTTGGTGGAGTAAGTGATGCATCATCAGGTTCAGTTGTGAAAAGACGACGTAGATGTCCATCTATGCTAGCGTTGAACGATCACAAGACCATTAATGGTGAGGGAAACCAACTTCAAACTTCTACAACACCGACAGTTGATCAAAGTAACACTGACACAACCACAACCACAACCACCAGTGTCACTACCCCAACTACCGTGAAAAGAAG...

Protein

Download Protein FASTA

411 aa · LXL04_005456|LXL04_005456|OH1004|PROTEIN

MDSVSTKSEASLRRRNSFGGVSDASSGSVVKRRRRCPSMLALNDHKTINGEGNQLQTSTTPTVDQSNTDTTTTTTTSVTTPTTVKRSSKFRGVSRHRWTGRYEAHLWDKGSWNATQKKKGKQGAYDEEESAARAYDLAAIKYWGTTTFTNFQVSDYEKELEIMENTTKEEYLATLRRRSSGFSRGVSKYRGVARHHHNGRWEARIGRVFGNKYLYLGTYSTQEEAAHAYDIAAIEYRGINAVTNFDLSTYIRWLRNGSNS...

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_005456`
TK1151 ID	TkA03G453190
OH-1004 ID	LXL04_005456
Relationship / confidence	Rbh High Identity Coverage Local Synteny Minor Chr Pair / Probable
Protein identity (%)	95.200
Protein coverage (%)	TK1151 100.000 / OH-1004 90.754 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_005456

Location Chr01:164549986-164552593 (+)

Description Similar to WRI1: Ethylene-responsive transcription factor WRI1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g54320`	May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity).	Contrapuntal networks of gene expression during Arabidopsis seed filling.2002 · DOI: 10.1105/tpc.000877 WRINKLED1 encodes an AP2/EREB domain protein involved in the control of storage compound biosynthesis in Arabidopsis.2004 · DOI: 10.1111/j.1365-313x.2004.02235.x ACTIVATOR of Spomin::LUC1/WRINKLED1 of Arabidopsis thaliana transactivates sugar-inducible promoters.2005 · DOI: 10.1093/pcp/pci072 A spatiotemporal analysis of enzymatic activities associated with carbon metabolism in wild-type and mutant embryos of Arabidopsis using in situ histochemistry.2006 · DOI: 10.1111/j.1365-313x.2006.02682.x WRI1 is required for seed germination and seedling establishment.2006 · DOI: 10.1104/pp.106.079574 wrinkled1: A novel, low-seed-oil mutant of Arabidopsis with a deficiency in the seed-specific regulation of carbohydrate metabolism.1998 · DOI: 10.1104/pp.118.1.91
`At5g57390`	Probably acts as a transcriptional activator.	AINTEGUMENTA-like (AIL) genes are expressed in young tissues and may specify meristematic or division-competent states.2005 · DOI: 10.1007/s11103-005-0955-6
`At1g72570`	Probably acts as a transcriptional activator.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0124700`	Acts as a positive regulator of adventitious (crown) root formation by promoting its initiation.	The auxin responsive AP2/ERF transcription factor CROWN ROOTLESS5 is involved in crown root initiation in rice through the induction of OsRR1, a type-A response regulator of cytokinin signaling.2011 · DOI: 10.1111/j.1365-313x.2011.04610.x

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_005456 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006109 regulation of carbohydrate metabolic process Biological Process

GO:0006110 regulation of glycolytic process Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0006629 lipid metabolic process Biological Process

GO:0008610 lipid biosynthetic process Biological Process

GO:0009744 response to sucrose Biological Process

GO:0009791 post-embryonic development Biological Process

GO:0009845 seed germination Biological Process

GO:0009873 ethylene-activated signaling pathway Biological Process

GO:0010311 lateral root formation Biological Process

GO:0019432 triglyceride biosynthetic process Biological Process

KEGG gene cross-reference

ath:AT3G54320

ath:AT5G57390

dosa:Os07g0124700

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.

Nucleus0.972

Rank 1 · LXL04_005456 · OH-1004

Cytoplasm0.077

Rank 2 · LXL04_005456 · OH-1004

Cell membrane0.025

Rank 3 · LXL04_005456 · OH-1004

Endoplasmic reticulum0.016

Rank 4 · LXL04_005456 · OH-1004

Plastid0.014

Rank 5 · LXL04_005456 · 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.

PF00847.27AP288-144 aa

PF00847.27AP2187-238 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005456	`PF00847.27`	AP2	88	144	1.4e-19	70.8
LXL04_005456	`PF00847.27`	AP2	187	238	1.4e-19	70.8

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
`Q6X5Y6`	Arabidopsis thaliana	Ethylene-responsive transcription factor WRI1	75.000%	Swiss-Prot	weak database homology
`Q6PQQ3`	Arabidopsis thaliana	AP2-like ethylene-responsive transcription factor AIL5	63.402%	Swiss-Prot	weak database homology
`Q1PFE1`	Arabidopsis thaliana	AP2-like ethylene-responsive transcription factor AIL1	61.856%	Swiss-Prot	weak database homology
`Q84Z02`	Oryza sativa subsp. japonica	AP2-like ethylene-responsive transcription factor CRL5	68.072%	Swiss-Prot	weak database homology

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