LXL04_034530 | RubberDandelionOmics

Gene overview

LXL04_034530

Reference: OH-1004 Chr: Chr07 Coordinates: 104140964-104143015 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1164 bp · LXL04_034530|LXL04_034530|OH1004|cDNA

ATGGCTTCATCAAATAGGCACTGGCCTAGTATGTTCAAATCCAAGCCCACCTGCAACACTCATCCTCACCACCAATGGCCGTCCCATGACTCCAACAATCTCCTTTCTTCTTCCTGTCACAGATCTCCTTACACTTCCGAATTGAAAGTACTAAAGTTGAGATTAATGGCAGGATGTGAAGAGAGAAGCCCGGAACCGAAGCCAAGATGGAACCCTAAACCTGAACAAATCCGGATCCTTGAATCCATTTTCAATTCCGG...

CDS

Download CDS FASTA

1164 bp · LXL04_034530|LXL04_034530|OH1004|CDS

ATGGCTTCATCAAATAGGCACTGGCCTAGTATGTTCAAATCCAAGCCCACCTGCAACACTCATCCTCACCACCAATGGCCGTCCCATGACTCCAACAATCTCCTTTCTTCTTCCTGTCACAGATCTCCTTACACTTCCGAATTGAAAGTACTAAAGTTGAGATTAATGGCAGGATGTGAAGAGAGAAGCCCGGAACCGAAGCCAAGATGGAACCCTAAACCTGAACAAATCCGGATCCTTGAATCCATTTTCAATTCCGG...

Protein

Download Protein FASTA

387 aa · LXL04_034530|LXL04_034530|OH1004|PROTEIN

MASSNRHWPSMFKSKPTCNTHPHHQWPSHDSNNLLSSSCHRSPYTSELKVLKLRLMAGCEERSPEPKPRWNPKPEQIRILESIFNSGMVNPPRDEIRKIRAQLQEYGQVGDANVFYWFQNRKSRSKHKSRHIQKSQNNQSKVATTSSSSSSEKSSSKSIEFLLNSPTASVNQHPPPYFSGGAAGYHHHHQHQHHSEFSQHPFFFTTVQQPPPITTTAGFTHGFSSPELGSGSGILLPDLMSMNQQSGIAKTSPNKCVEDE...

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_034530`
TK1151 ID	TkA08G404710
OH-1004 ID	LXL04_034530
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	96.000
Protein coverage (%)	TK1151 100.000 / OH-1004 97.674 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_034530

Location Chr07:104140964-104143015 (-)

Description Similar to WOX8: WUSCHEL-related homeobox 8

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g45980`	Probable transcription factor, which may be involved in embryonic patterning.	Expression dynamics of WOX genes mark cell fate decisions during early embryonic patterning in Arabidopsis thaliana.2004 · DOI: 10.1242/dev.00963 Combinations of WOX activities regulate tissue proliferation during Arabidopsis embryonic development.2007 · DOI: 10.1016/j.ydbio.2007.07.019 WOX2 and STIMPY-LIKE/WOX8 promote cotyledon boundary formation in Arabidopsis.2012 · DOI: 10.1111/j.1365-313x.2012.05113.x
`At2g33880`	Homeodomain transcription factor required for meristem growth and early development.	Requirement of homeobox gene STIMPY/WOX9 for Arabidopsis meristem growth and maintenance.2005 · DOI: 10.1016/j.cub.2004.12.079 Combinations of WOX activities regulate tissue proliferation during Arabidopsis embryonic development.2007 · DOI: 10.1016/j.ydbio.2007.07.019 STIMPY mediates cytokinin signaling during shoot meristem establishment in Arabidopsis seedlings.2010 · DOI: 10.1242/dev.041426 STIMPY mutants have increased cytokinin sensitivity during dark germination.2010 · DOI: 10.4161/psb.5.11.13356 Metabolic sugar signal promotes Arabidopsis meristematic proliferation via G2.2011 · DOI: 10.1016/j.ydbio.2010.12.019

Rice

Reference gene ID	Possible function	Papers / DOI
`Os05g0564500`	Transcription factor which may be involved in developmental processes.	No verified direct reference in this release
`Os01g0667400`	Transcription factor which may be involved in developmental processes.	No verified direct reference in this release
`Os07g0533100`	Transcription factor which may be involved in developmental processes.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_034530 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0008284 positive regulation of cell population proliferation Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0010075 regulation of meristem growth Biological Process

GO:0030010 establishment of cell polarity Biological Process

GO:0048731 system development Biological Process

GO:0048825 cotyledon development Biological Process

GO:0050793 regulation of developmental process Biological Process

GO:0090451 cotyledon boundary formation Biological Process

GO:1905393 plant organ formation Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

KEGG gene cross-reference

ath:AT2G33880

ath:AT5G45980

dosa:Os01g0667400

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.

Nucleus0.974

Rank 1 · LXL04_034530 · OH-1004

Cytoplasm0.095

Rank 2 · LXL04_034530 · OH-1004

Cell membrane0.029

Rank 3 · LXL04_034530 · OH-1004

Endoplasmic reticulum0.022

Rank 4 · LXL04_034530 · OH-1004

Plastid0.012

Rank 5 · LXL04_034530 · 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.

PF00046.36Homeodomain67-126 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_034530	`PF00046.36`	Homeodomain	67	126	5.7e-12	46.0

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
`Q6X7J5`	Arabidopsis thaliana	WUSCHEL-related homeobox 8	38.961%	Swiss-Prot	moderate database homology
`Q6X7J4`	Arabidopsis thaliana	WUSCHEL-related homeobox 9	75.940%	Swiss-Prot	weak database homology
`A3B6V0`	Oryza sativa subsp. japonica	WUSCHEL-related homeobox 12	66.667%	Swiss-Prot	weak database homology
`Q0JKK6`	Oryza sativa subsp. japonica	WUSCHEL-related homeobox 7	58.741%	Swiss-Prot	weak database homology
`A3BKM2`	Oryza sativa subsp. japonica	WUSCHEL-related homeobox 13	85.915%	Swiss-Prot	weak database homology

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