LXL04_017441 | RubberDandelionOmics

Gene overview

LXL04_017441

Reference: OH-1004 Chr: Chr03 Coordinates: 149340230-149342630 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1125 bp · LXL04_017441|LXL04_017441|OH1004|cDNA

ATGGAGATATTGAATCCGGCTCCCCAGCTAAGTTTGGATTTCAAACCGACTTTTATCCCTAAGACAATCAGTCAATTTTTGGGAGAAGTGGCGAGAATTGGTAGCGTATGTGAGAAGATATTGAAAGTCGATGATTTTGTTTGTCGATTAGAGATCGAAATCAGGAAAATCGATGCATTTAAACGCGAACTTCCTCTCTGCATGCTTCTCATGACCGATGCAATTGTTACTCTAAAAGAGGAATTAACGACGTTCAAGAA...

CDS

Download CDS FASTA

1125 bp · LXL04_017441|LXL04_017441|OH1004|CDS

ATGGAGATATTGAATCCGGCTCCCCAGCTAAGTTTGGATTTCAAACCGACTTTTATCCCTAAGACAATCAGTCAATTTTTGGGAGAAGTGGCGAGAATTGGTAGCGTATGTGAGAAGATATTGAAAGTCGATGATTTTGTTTGTCGATTAGAGATCGAAATCAGGAAAATCGATGCATTTAAACGCGAACTTCCTCTCTGCATGCTTCTCATGACCGATGCAATTGTTACTCTAAAAGAGGAATTAACGACGTTCAAGAA...

Protein

Download Protein FASTA

374 aa · LXL04_017441|LXL04_017441|OH1004|PROTEIN

MEILNPAPQLSLDFKPTFIPKTISQFLGEVARIGSVCEKILKVDDFVCRLEIEIRKIDAFKRELPLCMLLMTDAIVTLKEELTTFKKSANQPTLEEFIPLNKTCDEDPKVETDNGDKKNWLSSTHLWNTNENDSDTNQNHIPIQSPVKQVIQKKFEEEQEGMIDNGPFIPFKRYSVFTKNEDKMESPIPGLSLITPGLKIPMSGNDFLTKTSAIQTNVKIGTTQNQPPHPETSRKQRRCWSTELHRRFLNALQQLGGPKV...

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_017441`
TK1151 ID	TkA02G043690
OH-1004 ID	LXL04_017441
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 82.086 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_017441

Location Chr03:149340230-149342630 (-)

Description Similar to HHO5: Transcription factor HHO5

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g37180`	Transcriptional repressor that functions with ULT1 in a pathway which regulates floral meristem homeostasis and organ number in the flower.	No verified direct reference in this release
`At2g03500`	Transcription factor acting as a flowering repressor, directly repressing FT expression in a dosage-dependent manner in the leaf vasculature.	No verified direct reference in this release
`At1g68670`	Probable transcription factor involved in phosphate homeostasis.	Arabidopsis MYB-Related HHO2 Exerts a Regulatory Influence on a Subset of Root Traits and Genes Governing Phosphate Homeostasis.2016 · DOI: 10.1093/pcp/pcw063
`At1g25550`	Probable transcription factor involved in phosphate signaling in roots.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0325600`	Transcriptional repressor that may play a role in response to nitrogen.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_017441 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009266 response to temperature stimulus Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009740 gibberellic acid mediated signaling pathway Biological Process

GO:0009908 flower development Biological Process

GO:0010629 negative regulation of gene expression Biological Process

GO:0016036 cellular response to phosphate starvation Biological Process

GO:0034244 negative regulation of transcription elongation by RNA polymerase II Biological Process

GO:0045892 negative regulation of DNA-templated transcription Biological Process

GO:0048449 floral organ formation Biological Process

GO:0048579 negative regulation of long-day photoperiodism, flowering Biological Process

KEGG gene cross-reference

ath:AT1G25550

ath:AT1G68670

ath:AT2G03500

ath:AT4G37180

dosa:Os02g0325600

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.

Nucleus0.949

Rank 1 · LXL04_017441 · OH-1004

Cytoplasm0.124

Rank 2 · LXL04_017441 · OH-1004

Cell membrane0.023

Rank 3 · LXL04_017441 · OH-1004

Mitochondrion0.015

Rank 4 · LXL04_017441 · OH-1004

Endoplasmic reticulum0.010

Rank 5 · LXL04_017441 · 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.

PF26575.1HHO5_N11-82 aa

PF00249.38Myb_DNA-binding237-288 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_017441	`PF26575.1`	HHO5_N	11	82	8e-29	100.2
LXL04_017441	`PF00249.38`	Myb_DNA-binding	237	288	2.4e-06	28.3

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
`F4JRB0`	Arabidopsis thaliana	Transcription factor HHO5	37.537%	Swiss-Prot	moderate database homology
`Q9ZQ85`	Arabidopsis thaliana	Myb family transcription factor EFM	37.778%	Swiss-Prot	moderate database homology
`Q8VZS3`	Arabidopsis thaliana	Transcription factor HHO2	40.071%	Swiss-Prot	moderate database homology
`Q9FPE8`	Arabidopsis thaliana	Transcription factor HHO3	36.014%	Swiss-Prot	moderate database homology
`Q6Z869`	Oryza sativa subsp. japonica	Transcription factor NIGT1	34.915%	Swiss-Prot	moderate database homology

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