LXL04_012001 | RubberDandelionOmics

Gene overview

LXL04_012001

Reference: OH-1004 Chr: Chr03 Coordinates: 4587086-4589144 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

663 bp · LXL04_012001|LXL04_012001|OH1004|cDNA

ATGGCGAACATGCTTCGATGCCAGAGGATCGGCTGTAACGCTACTTTCACGGATGATGATAATCCCGAGGGCTCTTGCACATATCATGAGTCGCCTCTTTTTCACGATGGTATGAAAGAGTGGAGCTGTTGCAAAAAAAGAAGTCACGATTTCACCTTATTCTTAGAAATCCCAGGATGCAAGACAGGCAAACACACAACAGAAAAACCAGTGATAGCAAAAAAGGCTTCTACCCCTGCCCCAAAGCAAGTTATCAAAAC...

CDS

Download CDS FASTA

663 bp · LXL04_012001|LXL04_012001|OH1004|CDS

ATGGCGAACATGCTTCGATGCCAGAGGATCGGCTGTAACGCTACTTTCACGGATGATGATAATCCCGAGGGCTCTTGCACATATCATGAGTCGCCTCTTTTTCACGATGGTATGAAAGAGTGGAGCTGTTGCAAAAAAAGAAGTCACGATTTCACCTTATTCTTAGAAATCCCAGGATGCAAGACAGGCAAACACACAACAGAAAAACCAGTGATAGCAAAAAAGGCTTCTACCCCTGCCCCAAAGCAAGTTATCAAAAC...

Protein

Download Protein FASTA

220 aa · LXL04_012001|LXL04_012001|OH1004|PROTEIN

MANMLRCQRIGCNATFTDDDNPEGSCTYHESPLFHDGMKEWSCCKKRSHDFTLFLEIPGCKTGKHTTEKPVIAKKASTPAPKQVIKTPTTNPITKESCPRCRQGFFCSDHGSQVKDMKPKPSYEAESTSEESVKVKVKASPVVKKVVDINEPQICKNKGCGQTFKEIDNHETACNYHPGPAVFHDRLRGWKCCDIHVKEFDEFMGIPPCAKGWHDAEAAL

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_012001`
TK1151 ID	TkA02G593980
OH-1004 ID	LXL04_012001
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	98.900
Protein coverage (%)	TK1151 83.700 / OH-1004 86.364 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_012001

Location Chr03:4587086-4589144 (+)

Description Similar to RAR1: Cysteine and histidine-rich domain-containing protein RAR1

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g51700`	Required specifically for plant innate immunity.	Regulatory role of SGT1 in early R gene-mediated plant defenses.2002 · DOI: 10.1126/science.1067747 Arabidopsis RAR1 exerts rate-limiting control of R gene-mediated defenses against multiple pathogens.2002 · DOI: 10.1105/tpc.001040 RAR1 and NDR1 contribute quantitatively to disease resistance in Arabidopsis, and their relative contributions are dependent on the R gene assayed.2002 · DOI: 10.1105/tpc.001032 Cytosolic HSP90 associates with and modulates the Arabidopsis RPM1 disease resistance protein.2003 · DOI: 10.1093/emboj/cdg547 Antagonistic control of disease resistance protein stability in the plant immune system.2005 · DOI: 10.1126/science.1109977 Enhanced defense responses in Arabidopsis induced by the cell wall protein fractions from Pythium oligandrum require SGT1, RAR1, NPR1 and JAR1.2009 · DOI: 10.1093/pcp/pcp044 Specific Arabidopsis HSP90.2 alleles recapitulate RAR1 cochaperone function in plant NB-LRR disease resistance protein regulation.2009 · DOI: 10.1073/pnas.0904877106

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0535400`	Involved in basal disease resistance to virulent strain of bacterial blight (X.oryzae) and compatible race of rice blast fungus (M.grisea).	RAR1 and HSP90 form a complex with Rac/Rop GTPase and function in innate-immune responses in rice.2007 · DOI: 10.1105/tpc.107.055517 OsRAR1 and OsSGT1 physically interact and function in rice basal disease resistance.2008 · DOI: 10.1094/mpmi-21-3-0294

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_012001 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0002679 respiratory burst involved in defense response Biological Process

GO:0006952 defense response Biological Process

GO:0009626 plant-type hypersensitive response Biological Process

GO:0010824 regulation of centrosome duplication Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0050821 protein stabilization Biological Process

GO:0050832 defense response to fungus Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0008270 zinc ion binding Molecular Function

GO:0031267 small GTPase binding Molecular Function

GO:0046872 metal ion binding Molecular Function

KEGG gene cross-reference

ath:AT5G51700

xla:414542

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.

Cytoplasm0.597

Rank 1 · LXL04_012001 · OH-1004

Nucleus0.480

Rank 2 · LXL04_012001 · OH-1004

Mitochondrion0.072

Rank 3 · LXL04_012001 · OH-1004

Cell membrane0.067

Rank 4 · LXL04_012001 · OH-1004

Endoplasmic reticulum0.066

Rank 5 · LXL04_012001 · 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.

PF04968.18CHORD6-65 aa

PF04968.18CHORD154-214 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012001	`PF04968.18`	CHORD	6	65	5.8e-47	158.9
LXL04_012001	`PF04968.18`	CHORD	154	214	5.8e-47	158.9

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
`Q9SE33`	Arabidopsis thaliana	Cysteine and histidine-rich domain-containing protein RAR1	70.046%	Swiss-Prot	strong database homology
`Q6EPW7`	Oryza sativa subsp. japonica	Cysteine and histidine-rich domain-containing protein RAR1	63.256%	Swiss-Prot	strong database homology

JBrowse

View in Genome Browser

Gene Card