LXL04_024539 | RubberDandelionOmics

Gene overview

LXL04_024539

Reference: OH-1004 Chr: Chr05 Coordinates: 93382041-93383533 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

624 bp · LXL04_024539|LXL04_024539|OH1004|cDNA

ATGACAAGCAATTTGAAATCTCAAGCCGATGATCAAATGGTTCTCCTCTCCCATTATTATCCCGGGATTTACGATCAACTCATTCCAGAACAAGGGGAAGTTGTGAAGCCACGAAGAAGACGAAAGAAGAACAAAGGAGATGGGAACAGTAGCGTGATGAGAAAAAGGAAGCTGAGTGATGAGCAAGTGAATCTTCTAGAACAAAACTTCGGAAATGAACATAAATTGGAGTCGGAAAGAAAAGATCGGCTTGCTTCTGA...

CDS

Download CDS FASTA

624 bp · LXL04_024539|LXL04_024539|OH1004|CDS

ATGACAAGCAATTTGAAATCTCAAGCCGATGATCAAATGGTTCTCCTCTCCCATTATTATCCCGGGATTTACGATCAACTCATTCCAGAACAAGGGGAAGTTGTGAAGCCACGAAGAAGACGAAAGAAGAACAAAGGAGATGGGAACAGTAGCGTGATGAGAAAAAGGAAGCTGAGTGATGAGCAAGTGAATCTTCTAGAACAAAACTTCGGAAATGAACATAAATTGGAGTCGGAAAGAAAAGATCGGCTTGCTTCTGA...

Protein

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207 aa · LXL04_024539|LXL04_024539|OH1004|PROTEIN

MTSNLKSQADDQMVLLSHYYPGIYDQLIPEQGEVVKPRRRRKKNKGDGNSSVMRKRKLSDEQVNLLEQNFGNEHKLESERKDRLASELGLDPRQVAVWFQNRRARWKSKKLEEEYSKLKNQHDSTVLEKCQLESEILKLKEQLSEAEKEINRLVERSDGISSTSPSSSFSMEAMEPPFLGGFGMEGLENVFCLPENNYIHGYDWMNI

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_024539`
TK1151 ID	TkA06G133610
OH-1004 ID	LXL04_024539
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	79.000
Protein coverage (%)	TK1151 63.780 / OH-1004 39.130 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_024539

Location Chr05:93382041-93383533 (+)

Description Similar to ATHB-40: Homeobox-leucine zipper protein ATHB-40

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g36740`	Probable transcription factor.	No verified direct reference in this release
`At2g18550`	Probable transcription factor.	No verified direct reference in this release
`At5g66700`	Probable transcription factor that may play a regulatory role in auxin/cytokinin signaling during root development.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0581700`	Probable transcription factor.	No verified direct reference in this release
`UniProt: A2YN17`	Probable transcription factor.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_024539 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0009725 response to hormone Biological Process

GO:0009733 response to auxin Biological Process

GO:0045893 positive regulation of DNA-templated transcription Biological Process

GO:0048364 root development Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific Molecular Function

GO:0003677 DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0043565 sequence-specific DNA binding Molecular Function

KEGG gene cross-reference

ath:AT2G18550

ath:AT4G36740

ath:AT5G66700

dosa:Os07g0581700

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.

Nucleus0.982

Rank 1 · LXL04_024539 · OH-1004

Cytoplasm0.081

Rank 2 · LXL04_024539 · OH-1004

Cell membrane0.019

Rank 3 · LXL04_024539 · OH-1004

Endoplasmic reticulum0.011

Rank 4 · LXL04_024539 · OH-1004

Plastid0.009

Rank 5 · LXL04_024539 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF00046.36Homeodomain56-107 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_024539	`PF00046.36`	Homeodomain	56	107	2.7e-17	63.0

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.

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Protein	Organism	Description	Identity	Database	Confidence
`O23208`	Arabidopsis thaliana	Homeobox-leucine zipper protein ATHB-40	58.768%	Swiss-Prot	strong database homology
`Q9ZU70`	Arabidopsis thaliana	Homeobox-leucine zipper protein ATHB-21	55.349%	Swiss-Prot	strong database homology
`Q9LVR0`	Arabidopsis thaliana	Homeobox-leucine zipper protein ATHB-53	60.256%	Swiss-Prot	strong database homology
`Q7XI85`	Oryza sativa subsp. japonica	Homeobox-leucine zipper protein HOX14	54.225%	Swiss-Prot	moderate database homology
`A2YN17`	Oryza sativa subsp. indica	Homeobox-leucine zipper protein HOX14	54.225%	Swiss-Prot	moderate database homology

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