LXL04_014722 | RubberDandelionOmics

Gene overview

LXL04_014722

Reference: OH-1004 Chr: Chr03 Coordinates: 55592952-55595278 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2238 bp · LXL04_014722|LXL04_014722|OH1004|cDNA

ATGATAAACGAGAGAGAAAATTACTCGAGTGATGGTGTTAATGGAGGTCAAAACTCTGAATCGAAGCTAACAGAGCTGACATCTGATGAAAATCGAGGGAATCTGGATGAAAAAACTGGGTTTTCCGATAAAAATAACGGTTTTCCTAGAAATCCAGAGTCAAAACCCTCAAAATTGGGGATTTCTCAAGAGTTGACTTTGAGCTATCTCTGTGATAATTCGACATTAGCTCAGAACCCGGCTGAGAACGGAAGAGGTTT...

CDS

Download CDS FASTA

2238 bp · LXL04_014722|LXL04_014722|OH1004|CDS

ATGATAAACGAGAGAGAAAATTACTCGAGTGATGGTGTTAATGGAGGTCAAAACTCTGAATCGAAGCTAACAGAGCTGACATCTGATGAAAATCGAGGGAATCTGGATGAAAAAACTGGGTTTTCCGATAAAAATAACGGTTTTCCTAGAAATCCAGAGTCAAAACCCTCAAAATTGGGGATTTCTCAAGAGTTGACTTTGAGCTATCTCTGTGATAATTCGACATTAGCTCAGAACCCGGCTGAGAACGGAAGAGGTTT...

Protein

Download Protein FASTA

745 aa · LXL04_014722|LXL04_014722|OH1004|PROTEIN

MINERENYSSDGVNGGQNSESKLTELTSDENRGNLDEKTGFSDKNNGFPRNPESKPSKLGISQELTLSYLCDNSTLAQNPAENGRGLLNSFDKVKGKLVASEDHNNPNPDENRWVERDFLQLSENSSKRDAEDDEYYQTNRDKKPKLETLDLSLALPDTSMSLAASNRLQDGDPSVSLKPSRSFQSLGISNSNNTQTTFSNDFTTGSMSYSYSHQFSHNPSCSMTRNSTENYDYSMGSHRRECDQIWNGGEGTNGSVHSR...

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_014722`
TK1151 ID	TkA02G402410
OH-1004 ID	LXL04_014722
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.100
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_014722

Location Chr03:55592952-55595278 (+)

Description Similar to OBE3: Protein OBERON 3

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`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
`At3g63500`	Probable transcription factor that functions redundantly with OBE3 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

Reference gene ID	Possible function	Papers / DOI
`Os03g0239200`	Probable transcription factor that functions as a regulator of metal transporter genes responsible for essential metals delivery to shoots and normal plant growth.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_014722 · 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: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

GO:0098659 inorganic cation import across plasma membrane Biological Process

KEGG gene cross-reference

ath:AT1G14740

ath:AT3G63500

ath:AT5G48160

dosa:Os03g0239200

osa:4332199

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.

Nucleus0.969

Rank 1 · LXL04_014722 · OH-1004

Cytoplasm0.083

Rank 2 · LXL04_014722 · OH-1004

Cell membrane0.029

Rank 3 · LXL04_014722 · OH-1004

Endoplasmic reticulum0.015

Rank 4 · LXL04_014722 · OH-1004

Plastid0.013

Rank 5 · LXL04_014722 · 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.

PF07227.18PHD_Oberon422-546 aa

PF16312.11Oberon_cc633-734 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_014722	`PF07227.18`	PHD_Oberon	422	546	1.2e-35	122.9
LXL04_014722	`PF16312.11`	Oberon_cc	633	734	1.9e-36	125.5

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
`Q94B71`	Arabidopsis thaliana	Protein OBERON 3	53.352%	Swiss-Prot	strong database homology
`Q84TI3`	Arabidopsis thaliana	Protein OBERON 4	35.169%	Swiss-Prot	moderate database homology
`Q9LUB7`	Arabidopsis thaliana	Protein OBERON 2	36.806%	Swiss-Prot	moderate database homology
`Q10PC5`	Oryza sativa subsp. japonica	Protein TITANIA	48.955%	Swiss-Prot	moderate database homology

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