LXL04_032417 | RubberDandelionOmics

Gene overview

LXL04_032417

Reference: OH-1004 Chr: Chr07 Coordinates: 22434147-22437118 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2070 bp · LXL04_032417|LXL04_032417|OH1004|cDNA

ATGAATCTTGGTGGAGGTCAAGTAGTTAGCAAACAATCGATGATGCCTAGTTCAAGCTGTACTTCTTGGAAGTCCACCGCTggcggcggaggtagtggtggtGGCGGAGGCGACGGCGGTGTCCCTGATCAGTTTCCGGCCGGTCTACGGGTGCTTGTTGTTGATGATGACCCAACGTGTCTCATGATCTTGGAGAAGATGCTTAGAAATTGCAACTATGAAGTAACTAAATGCAACAGAGCGGAGGTTGCTTTATCGCA...

CDS

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2070 bp · LXL04_032417|LXL04_032417|OH1004|CDS

ATGAATCTTGGTGGAGGTCAAGTAGTTAGCAAACAATCGATGATGCCTAGTTCAAGCTGTACTTCTTGGAAGTCCACCGCTGGCGGCGGAGGTAGTGGTGGTGGCGGAGGCGACGGCGGTGTCCCTGATCAGTTTCCGGCCGGTCTACGGGTGCTTGTTGTTGATGATGACCCAACGTGTCTCATGATCTTGGAGAAGATGCTTAGAAATTGCAACTATGAAGTAACTAAATGCAACAGAGCGGAGGTTGCTTTATCGCA...

Protein

Download Protein FASTA

689 aa · LXL04_032417|LXL04_032417|OH1004|PROTEIN

MNLGGGQVVSKQSMMPSSSCTSWKSTAGGGGSGGGGGDGGVPDQFPAGLRVLVVDDDPTCLMILEKMLRNCNYEVTKCNRAEVALSHLRENKNGFDVVISDVHMPDMDGFKLLEHIGIEMDLPVIMMSADDSKSVVMKGVTHGACDYLIKPVRIEALRNIWQHVVRKRKHEWKDFEPSASADEQKPPEEPDYSSSANEGHNWKNTKRRKEEDDEAEERDDSSSLKKPRVVWSVELHQQFVAAVNQLGIDKAVPKKILELM...

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_032417`
TK1151 ID	TkA08G173390
OH-1004 ID	LXL04_032417
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	98.100
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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_032417

Location Chr07:22434147-22437118 (+)

Description Similar to ARR1: Two-component response regulator ARR1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g16857`	Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'.	Two-component circuitry in Arabidopsis cytokinin signal transduction.2001 · DOI: 10.1038/35096500 ARR1, a transcription factor for genes immediately responsive to cytokinins.2001 · DOI: 10.1126/science.1065201 A genetic framework for the control of cell division and differentiation in the root meristem.2008 · DOI: 10.1126/science.1164147
`At4g16110`	Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'.	The response regulator ARR2: a pollen-specific transcription factor involved in the expression of nuclear genes for components of mitochondrial complex I in Arabidopsis.2001 · DOI: 10.1007/s004380000400 Two-component circuitry in Arabidopsis cytokinin signal transduction.2001 · DOI: 10.1038/35096500 The response regulator 2 mediates ethylene signalling and hormone signal integration in Arabidopsis.2004 · DOI: 10.1038/sj.emboj.7600337 Cytokinin-mediated control of leaf longevity by AHK3 through phosphorylation of ARR2 in Arabidopsis.2006 · DOI: 10.1073/pnas.0505150103

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0224200`	Transcriptional activator that binds specific DNA sequence.	No verified direct reference in this release
`UniProt: A2XE31`	Transcriptional activator that binds specific DNA sequence.	No verified direct reference in this release
`Os06g0183100`	Transcriptional activator that binds specific DNA sequence.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_032417 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000160 phosphorelay signal transduction system Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0009414 response to water deprivation Biological Process

GO:0009723 response to ethylene Biological Process

GO:0009735 response to cytokinin Biological Process

GO:0009736 cytokinin-activated signaling pathway Biological Process

GO:0009873 ethylene-activated signaling pathway Biological Process

GO:0010082 regulation of root meristem growth Biological Process

GO:0010119 regulation of stomatal movement Biological Process

GO:0010150 leaf senescence Biological Process

GO:0010380 regulation of chlorophyll biosynthetic process Biological Process

GO:0010492 maintenance of shoot apical meristem identity Biological Process

KEGG gene cross-reference

ath:AT3G16857

ath:AT4G16110

dosa:Os03g0224200

dosa:Os06g0183100

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.

Nucleus0.974

Rank 1 · LXL04_032417 · OH-1004

Cytoplasm0.075

Rank 2 · LXL04_032417 · OH-1004

Cell membrane0.026

Rank 3 · LXL04_032417 · OH-1004

Endoplasmic reticulum0.016

Rank 4 · LXL04_032417 · OH-1004

Plastid0.012

Rank 5 · LXL04_032417 · 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.

PF00072.31Response_reg51-159 aa

PF00249.38Myb_DNA-binding228-278 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_032417	`PF00072.31`	Response_reg	51	159	2e-24	86.6
LXL04_032417	`PF00249.38`	Myb_DNA-binding	228	278	4.2e-08	33.9

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
`Q940D0`	Arabidopsis thaliana	Two-component response regulator ARR1	45.148%	Swiss-Prot	moderate database homology
`Q9ZWJ9`	Arabidopsis thaliana	Two-component response regulator ARR2	46.463%	Swiss-Prot	moderate database homology
`Q8H7S7`	Oryza sativa subsp. japonica	Two-component response regulator ORR21	59.012%	Swiss-Prot	weak database homology
`A2XE31`	Oryza sativa subsp. indica	Two-component response regulator ORR21	59.012%	Swiss-Prot	weak database homology
`Q5SML5`	Oryza sativa subsp. japonica	Two-component response regulator ORR22	52.744%	Swiss-Prot	weak database homology

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