LXL04_028590 | RubberDandelionOmics

Gene overview

LXL04_028590

Reference: OH-1004 Chr: Chr06 Coordinates: 46891231-46895736 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

948 bp · LXL04_028590|LXL04_028590|OH1004|cDNA

ATGAGTGAATCTATGGAGATTGACCCTCCGCATGAAAGTGATGGAAGCACCACCGGGTCAAAGGAAAGTGAGAGCCCTGTGGTGTTTGATAGCTCAGGTCTTGGGTTGCCATATGCTCCTGAAGATTTCCCTAAACCCGGTGACAAGTGGGGTTGGAAAGTGGGAAAAAGAGTTGGTGTTTCAGGGCACTTTCTGGACAGATATCTTTATCCTCCTGATCGCCTTTATAAAGAAATTAGGTCAGGGGGTTTCACTGGTGT...

CDS

Download CDS FASTA

948 bp · LXL04_028590|LXL04_028590|OH1004|CDS

ATGAGTGAATCTATGGAGATTGACCCTCCGCATGAAAGTGATGGAAGCACCACCGGGTCAAAGGAAAGTGAGAGCCCTGTGGTGTTTGATAGCTCAGGTCTTGGGTTGCCATATGCTCCTGAAGATTTCCCTAAACCCGGTGACAAGTGGGGTTGGAAAGTGGGAAAAAGAGTTGGTGTTTCAGGGCACTTTCTGGACAGATATCTTTATCCTCCTGATCGCCTTTATAAAGAAATTAGGTCAGGGGGTTTCACTGGTGT...

Protein

Download Protein FASTA

315 aa · LXL04_028590|LXL04_028590|OH1004|PROTEIN

MSESMEIDPPHESDGSTTGSKESESPVVFDSSGLGLPYAPEDFPKPGDKWGWKVGKRVGVSGHFLDRYLYPPDRLYKEIRSGGFTGVIGGKCFASKASLERYVMETFPGTDINAFFASFTWKIQAANIRGSKEIIMEHPICNQQFNPAGCKAGNINCSSLQEPHNPTFHSNTMPCDICCSEPFFCHDCCCILCSRPVNSANGDHTFIRCEAIVNQNQKGLVCGHICHMECGLRSYMAGTVGGTIGLDAEYSCRRCDARTD...

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_028590`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_028590

Location Chr06:46891231-46895736 (-)

Description Similar to OBE1: Protein OBERON 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g07780`	Probable transcription factor that acts together with OBE2 for the maintenance and/or establishment of both the shoot and root meristems, probably by controlling the expression of the meristem genes such as WUS, PLT1 and PLT2 and of genes required for auxin responses.	The Arabidopsis OBERON1 and OBERON2 genes encode plant homeodomain finger proteins and are required for apical meristem maintenance.2008 · DOI: 10.1242/dev.014993 Arabidopsis plant homeodomain finger proteins operate downstream of auxin accumulation in specifying the vasculature and primary root meristem.2009 · DOI: 10.1111/j.1365-313x.2009.03874.x
`At1g14740`	Probable transcription factor that functions redundantly with OBE4 in specification of the hypophysis and establishment of the embryonic root.	OBE3 and WUS Interaction in Shoot Meristem Stem Cell Regulation.2016 · DOI: 10.1371/journal.pone.0155657
`At5g48160`	Probable transcription factor that acts together with OBE1 for the maintenance and/or establishment of both the shoot and root meristems, probably by controlling the expression of the meristem genes such as WUS, PLT1 and PLT2 and of genes required for auxin responses.	The Arabidopsis OBERON1 and OBERON2 genes encode plant homeodomain finger proteins and are required for apical meristem maintenance.2008 · DOI: 10.1242/dev.014993 Arabidopsis plant homeodomain finger proteins operate downstream of auxin accumulation in specifying the vasculature and primary root meristem.2009 · DOI: 10.1111/j.1365-313x.2009.03874.x

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_028590 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0001708 cell fate specification Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0009880 embryonic pattern specification Biological Process

GO:0010071 root meristem specification Biological Process

GO:0010078 maintenance of root meristem identity Biological Process

GO:0010468 regulation of gene expression Biological Process

GO:0010492 maintenance of shoot apical meristem identity Biological Process

GO:0031347 regulation of defense response Biological Process

GO:0046740 transport of virus in host, cell to cell Biological Process

GO:0080022 primary root development Biological Process

GO:0090421 embryonic meristem initiation Biological Process

KEGG gene cross-reference

ath:AT1G14740

ath:AT3G07780

ath:AT5G48160

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.

Nucleus0.806

Rank 1 · LXL04_028590 · OH-1004

Cytoplasm0.242

Rank 2 · LXL04_028590 · OH-1004

Cell membrane0.047

Rank 3 · LXL04_028590 · OH-1004

Endoplasmic reticulum0.030

Rank 4 · LXL04_028590 · OH-1004

Mitochondrion0.018

Rank 5 · LXL04_028590 · 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.

PF23299.2DUF708126-124 aa

PF07227.18PHD_Oberon153-288 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_028590	`PF23299.2`	DUF7081	26	124	3.7e-35	121.1
LXL04_028590	`PF07227.18`	PHD_Oberon	153	288	7.8e-29	100.9

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
`Q9S736`	Arabidopsis thaliana	Protein OBERON 1	25.000%	Swiss-Prot	weak database homology
`Q94B71`	Arabidopsis thaliana	Protein OBERON 3	25.610%	Swiss-Prot	weak database homology
`Q9LUB7`	Arabidopsis thaliana	Protein OBERON 2	24.828%	Swiss-Prot	weak database homology

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