LXL04_006923 | RubberDandelionOmics

Gene overview

LXL04_006923

Reference: OH-1004 Chr: Chr02 Coordinates: 30018160-30020291 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

807 bp · LXL04_006923|LXL04_006923|OH1004|cDNA

ATGGCTCGGAGGTCGTTTACATTGTACATTGATCTAAATGGGGAACCTGCAGAAATGAGCGTCTCTGAGTTTCTCACGTATCTATCAACAATGGATGATGACTCCGAGAAAGTCAATGCGGCCGTTGACTTTATTCTTAATTTACAGGAAGAACTGTTAATGGTCACTTCCTTTGAATGTCGGTTTCCAAATTGCATTCGTTTTCTAAAAGATGCTATTGCCACTGTTCAAAAAGAAAAACAGAAGTGTGAAAAACGAGC...

CDS

Download CDS FASTA

807 bp · LXL04_006923|LXL04_006923|OH1004|CDS

ATGGCTCGGAGGTCGTTTACATTGTACATTGATCTAAATGGGGAACCTGCAGAAATGAGCGTCTCTGAGTTTCTCACGTATCTATCAACAATGGATGATGACTCCGAGAAAGTCAATGCGGCCGTTGACTTTATTCTTAATTTACAGGAAGAACTGTTAATGGTCACTTCCTTTGAATGTCGGTTTCCAAATTGCATTCGTTTTCTAAAAGATGCTATTGCCACTGTTCAAAAAGAAAAACAGAAGTGTGAAAAACGAGC...

Protein

Download Protein FASTA

268 aa · LXL04_006923|LXL04_006923|OH1004|PROTEIN

MARRSFTLYIDLNGEPAEMSVSEFLTYLSTMDDDSEKVNAAVDFILNLQEELLMVTSFECRFPNCIRFLKDAIATVQKEKQKCEKRAREKEGKLHEGNSDISKGTLIISDENKDMNEGQTNSISDESFVENEMVPILLGPMVQPEDMRSDPNVVQEVNRRQRMVWSVDLHREFKFAVEALGGAREAKPKNIHGLLKVDGLTTEQIKSHLQRYRKHLISRGQLHSAIGSNHNMQNANSMLIRTRFSMLCMQPGESSNTHMT...

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_006923`
TK1151 ID	TkA03G089480
OH-1004 ID	LXL04_006923
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.600
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_006923

Location Chr02:30018160-30020291 (-)

Description Similar to HHO3: Transcription factor HHO3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g25550`	Probable transcription factor involved in phosphate signaling in roots.	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
`At1g13300`	Transcription factor involved in nitrate and phosphate signaling in roots.	Overexpressing HRS1 confers hypersensitivity to low phosphate-elicited inhibition of primary root growth in Arabidopsis thaliana.2009 · DOI: 10.1111/j.1744-7909.2009.00819.x HRS1 acts as a negative regulator of abscisic acid signaling to promote timely germination of Arabidopsis seeds.2012 · DOI: 10.1371/journal.pone.0035764 AtNIGT1/HRS1 integrates nitrate and phosphate signals at the Arabidopsis root tip.2015 · DOI: 10.1038/ncomms7274

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0176700`	Probable transcription factor that may play a role in regulatory networks controlling development and metabolism.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_006923 · 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:0009788 negative regulation of abscisic acid-activated signaling pathway Biological Process

GO:0009908 flower development Biological Process

GO:0016036 cellular response to phosphate starvation Biological Process

GO:0032107 regulation of response to nutrient levels Biological Process

GO:0034244 negative regulation of transcription elongation by RNA polymerase II 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:AT1G13300

ath:AT1G25550

ath:AT1G68670

ath:AT2G03500

dosa:Os01g0176700

osa:4326224

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.

Nucleus0.968

Rank 1 · LXL04_006923 · OH-1004

Cytoplasm0.111

Rank 2 · LXL04_006923 · OH-1004

Cell membrane0.020

Rank 3 · LXL04_006923 · OH-1004

Mitochondrion0.010

Rank 4 · LXL04_006923 · OH-1004

Endoplasmic reticulum0.010

Rank 5 · LXL04_006923 · 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_N19-80 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_006923	`PF26575.1`	HHO5_N	19	80	9.8e-10	39.0

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9FPE8`	Arabidopsis thaliana	Transcription factor HHO3	56.897%	Swiss-Prot	weak database homology
`Q9ZQ85`	Arabidopsis thaliana	Myb family transcription factor EFM	51.562%	Swiss-Prot	weak database homology
`Q8VZS3`	Arabidopsis thaliana	Transcription factor HHO2	41.667%	Swiss-Prot	weak database homology
`Q9FX67`	Arabidopsis thaliana	Transcription factor HRS1	44.828%	Swiss-Prot	weak database homology
`Q5VRW2`	Oryza sativa subsp. japonica	Transcription factor NIGTH1	48.684%	Swiss-Prot	weak database homology

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