LXL04_001651 | RubberDandelionOmics

Gene overview

LXL04_001651

Reference: OH-1004 Chr: Chr01 Coordinates: 30797415-30799079 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1131 bp · LXL04_001651|LXL04_001651|OH1004|cDNA

ATGGGGAGCTTGAATCCGCCTCCTGAGCTGAGTTTGGATTTCAAACCCACTTTTGTCCCTAAAACAATCTCTCAATTTCTACGACAAGTATCCACAATCGCTACGGATTCTGACAAAATATTGAAACTCGATGATTTTGTTAGCCAATTGGAAACCGAAATGCGGAAAATCGATGCCTTCAAACGGGAACTCCCTCTTTGCATGCTCCTCATTAATGATGCAATTATTACAGTGAAAGAGGATTTGACGGTGTTAAAGAA...

CDS

Download CDS FASTA

1131 bp · LXL04_001651|LXL04_001651|OH1004|CDS

ATGGGGAGCTTGAATCCGCCTCCTGAGCTGAGTTTGGATTTCAAACCCACTTTTGTCCCTAAAACAATCTCTCAATTTCTACGACAAGTATCCACAATCGCTACGGATTCTGACAAAATATTGAAACTCGATGATTTTGTTAGCCAATTGGAAACCGAAATGCGGAAAATCGATGCCTTCAAACGGGAACTCCCTCTTTGCATGCTCCTCATTAATGATGCAATTATTACAGTGAAAGAGGATTTGACGGTGTTAAAGAA...

Protein

Download Protein FASTA

376 aa · LXL04_001651|LXL04_001651|OH1004|PROTEIN

MGSLNPPPELSLDFKPTFVPKTISQFLRQVSTIATDSDKILKLDDFVSQLETEMRKIDAFKRELPLCMLLINDAIITVKEDLTVLKKSSNTEPILEEFIPLKNTCDEDAKLEDAMKEKGGGDKKNWLSTTQLWNNPNANQTQNWKPNSLTKKRTDEEEDGMIDDPYPAKAYIPYKGICGFTMVDEDREESPIPGLSLITPGIKNPPRGNLLLTKPNSNSNSRGVPCSSPNVQPIPPNQQTSRKQRRCWSTELHRRFVNAL...

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_001651`
TK1151 ID	TkA01G520320
OH-1004 ID	LXL04_001651
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.200
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_001651

Location Chr01:30797415-30799079 (+)

Description Similar to EFM: Myb family transcription factor EFM

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`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
`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
`At1g25550`	Probable transcription factor involved in phosphate signaling in roots.	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
`At1g49560`	Probable transcription factor involved in phosphate signaling in roots.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_001651 · 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:0048449 floral organ formation Biological Process

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

GO:0055062 phosphate ion homeostasis Biological Process

KEGG gene cross-reference

ath:AT1G25550

ath:AT1G49560

ath:AT1G68670

ath:AT2G03500

ath:AT4G37180

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.

Nucleus0.970

Rank 1 · LXL04_001651 · OH-1004

Cytoplasm0.092

Rank 2 · LXL04_001651 · OH-1004

Cell membrane0.025

Rank 3 · LXL04_001651 · OH-1004

Endoplasmic reticulum0.014

Rank 4 · LXL04_001651 · OH-1004

Plastid0.012

Rank 5 · LXL04_001651 · 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.

PF26575.1HHO5_N11-82 aa

PF00249.38Myb_DNA-binding245-296 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_001651	`PF26575.1`	HHO5_N	11	82	5.8e-30	103.8
LXL04_001651	`PF00249.38`	Myb_DNA-binding	245	296	2.2e-08	34.8

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
`Q9ZQ85`	Arabidopsis thaliana	Myb family transcription factor EFM	40.059%	Swiss-Prot	moderate database homology
`F4JRB0`	Arabidopsis thaliana	Transcription factor HHO5	37.621%	Swiss-Prot	moderate database homology
`Q9FPE8`	Arabidopsis thaliana	Transcription factor HHO3	37.500%	Swiss-Prot	moderate database homology
`Q8VZS3`	Arabidopsis thaliana	Transcription factor HHO2	33.626%	Swiss-Prot	moderate database homology
`Q9FX84`	Arabidopsis thaliana	Transcription factor HHO6	37.960%	Swiss-Prot	moderate database homology

JBrowse

View in Genome Browser

Gene Card