LXL04_019300 | RubberDandelionOmics

Gene overview

LXL04_019300

Reference: OH-1004 Chr: Chr04 Coordinates: 28369179-28370743 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

936 bp · LXL04_019300|LXL04_019300|OH1004|cDNA

ATGGAAGATCAAGCTCAAACTCAAGTTCCAAGTCCGACTCCCAGTAGTCCAAGAAGCCATTGTCTTGAAAGAAATGAACCCGTTAGGTCACGATGGACCCCTAAACCTGAACAAATCCTTATTCTCGAGTCAATTTTCAACAGCGGCATGGTTAATCCTCCCAAGGAGGAAACCGTGAAGATAAGGAAGCTCCTTGAGAAATTCGGATCTGTTGGCGACGCTAATGTCTTCTACTGGTTTCAGAACCGCCGTTCCAGATC...

CDS

Download CDS FASTA

936 bp · LXL04_019300|LXL04_019300|OH1004|CDS

ATGGAAGATCAAGCTCAAACTCAAGTTCCAAGTCCGACTCCCAGTAGTCCAAGAAGCCATTGTCTTGAAAGAAATGAACCCGTTAGGTCACGATGGACCCCTAAACCTGAACAAATCCTTATTCTCGAGTCAATTTTCAACAGCGGCATGGTTAATCCTCCCAAGGAGGAAACCGTGAAGATAAGGAAGCTCCTTGAGAAATTCGGATCTGTTGGCGACGCTAATGTCTTCTACTGGTTTCAGAACCGCCGTTCCAGATC...

Protein

Download Protein FASTA

311 aa · LXL04_019300|LXL04_019300|OH1004|PROTEIN

MEDQAQTQVPSPTPSSPRSHCLERNEPVRSRWTPKPEQILILESIFNSGMVNPPKEETVKIRKLLEKFGSVGDANVFYWFQNRRSRSRRRQRQIQASLMTTAGSVEQHQVQQQLPMLTRYMSGGGGGDGGGGAIEYQGGSTGNYTAPPSAVGFHIQQPSFFPLAGSSSSSSSSSSSSSSSRLGGPDEVYTLSGQSSGGFPEQNASMPSSFQHLDTSKSHYQFGLGVITVFINGVPTEVESGPLNMKSMLGEDLMIVHSSG...

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_019300`
TK1151 ID	TkA05G038970
OH-1004 ID	LXL04_019300
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	95.500
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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_019300

Location Chr04:28369179-28370743 (-)

Description Similar to WOX11: WUSCHEL-related homeobox 11

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g03660`	Transcription factor which may be involved in developmental processes.	No verified direct reference in this release
`At5g17810`	Transcription factor which may be involved in developmental processes.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0684900`	Transcription factor involved in crown root development.	The WUSCHEL-related homeobox gene WOX11 is required to activate shoot-borne crown root development in rice.2009 · DOI: 10.1105/tpc.108.061655 The Interaction between Rice ERF3 and WOX11 Promotes Crown Root Development by Regulating Gene Expression Involved in Cytokinin Signaling.2015 · DOI: 10.1105/tpc.15.00227 Rice Homeodomain Protein WOX11 Recruits a Histone Acetyltransferase Complex to Establish Programs of Cell Proliferation of Crown Root Meristem.2017 · DOI: 10.1105/tpc.16.00908 Transcriptional regulatory network of WOX11 is involved in the control of crown root development, cytokinin signals, and redox in rice.2017 · DOI: 10.1093/jxb/erx153 The YUCCA-Auxin-WOX11 Module Controls Crown Root Development in Rice.2018 · DOI: 10.3389/fpls.2018.00523
`UniProt: B8B644`	Transcription factor which may be involved in developmental processes.	No verified direct reference in this release
`UniProt: A2XG77`	Transcription factor which may be involved in developmental processes.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_019300 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0010311 lateral root formation Biological Process

GO:0048364 root development Biological Process

GO:0048830 adventitious root development Biological Process

GO:1905393 plant organ formation Biological Process

GO:0005634 nucleus Cellular Component

GO:0003677 DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

KEGG gene cross-reference

ath:AT3G03660

ath:AT5G17810

dosa:Os07g0684900

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Nucleus0.971

Rank 1 · LXL04_019300 · OH-1004

Cytoplasm0.109

Rank 2 · LXL04_019300 · OH-1004

Cell membrane0.027

Rank 3 · LXL04_019300 · OH-1004

Endoplasmic reticulum0.020

Rank 4 · LXL04_019300 · OH-1004

Plastid0.011

Rank 5 · LXL04_019300 · 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.

PF00046.36Homeodomain29-89 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_019300	`PF00046.36`	Homeodomain	29	89	8.8e-11	42.2

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
`Q6X7J3`	Arabidopsis thaliana	WUSCHEL-related homeobox 11	48.485%	Swiss-Prot	moderate database homology
`Q8GY25`	Arabidopsis thaliana	WUSCHEL-related homeobox 12	47.232%	Swiss-Prot	moderate database homology
`Q0D3I7`	Oryza sativa subsp. japonica	WUSCHEL-related homeobox 11	82.353%	Swiss-Prot	weak database homology
`B8B644`	Oryza sativa subsp. indica	WUSCHEL-related homeobox 11	82.353%	Swiss-Prot	weak database homology
`A2XG77`	Oryza sativa subsp. indica	WUSCHEL-related homeobox 6	92.982%	Swiss-Prot	weak database homology

JBrowse

View in Genome Browser

Gene Card