LXL04_033513 | RubberDandelionOmics

Gene overview

LXL04_033513

Reference: OH-1004 Chr: Chr07 Coordinates: 45952581-45956459 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1356 bp · LXL04_033513|LXL04_033513|OH1004|cDNA

ATGCCGATTGTCACACGTTTTTTTATGAGAATTTCTCGATCAGCTCCATCGAACGGGAAATTGGGTATAGGGTTTTGGCAACGGAGGTTTATGAGGGTTTTGACGTGTGAGGAGCAGGAATTGGTCAATGAAACTGACAGTGTTAAGAACCAGAGATTTGTGGCTGTATGGGGCAATGGTGATTATGGGAGGTTGGGTTTGGGTAGCGTGGAATCCAAATGGAGGCCTGCTCTTTGTTCGGCTTTTGGCGATGGAAATCT...

CDS

Download CDS FASTA

1356 bp · LXL04_033513|LXL04_033513|OH1004|CDS

ATGCCGATTGTCACACGTTTTTTTATGAGAATTTCTCGATCAGCTCCATCGAACGGGAAATTGGGTATAGGGTTTTGGCAACGGAGGTTTATGAGGGTTTTGACGTGTGAGGAGCAGGAATTGGTCAATGAAACTGACAGTGTTAAGAACCAGAGATTTGTGGCTGTATGGGGCAATGGTGATTATGGGAGGTTGGGTTTGGGTAGCGTGGAATCCAAATGGAGGCCTGCTCTTTGTTCGGCTTTTGGCGATGGAAATCT...

Protein

Download Protein FASTA

451 aa · LXL04_033513|LXL04_033513|OH1004|PROTEIN

MPIVTRFFMRISRSAPSNGKLGIGFWQRRFMRVLTCEEQELVNETDSVKNQRFVAVWGNGDYGRLGLGSVESKWRPALCSAFGDGNLREIACGGAHTLFLTDAGNVYASGLNDCGQLGVSDGRGYTIDPLEVSGLPNNIVKVSAGYYHSSAITESGELYMWGKNSSGQLGLGKKAGKVIPVPSKVEFLNGVPIKMAALGSDHSISVTETGEVLSWGGGESGRLGHGHKSSLLGFLSSTSEYTPRLIKELEGVKIKSVAAG...

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_033513`
TK1151 ID	TkA08G270070
OH-1004 ID	LXL04_033513
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	96.200
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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_033513

Location Chr07:45952581-45956459 (-)

Description Similar to UVR8: Ultraviolet-B receptor UVR8

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g63860`	UV-B specific signaling component that acts as a UV-B photoreceptor and plays a key role in establishing UV-protective responses in plants.	A UV-B-specific signaling component orchestrates plant UV protection.2005 · DOI: 10.1073/pnas.0507187102 UV-B promotes rapid nuclear translocation of the Arabidopsis UV-B specific signaling component UVR8 and activates its function in the nucleus.2007 · DOI: 10.1105/tpc.107.053330 UV-B signaling pathways with different fluence-rate response profiles are distinguished in mature Arabidopsis leaf tissue by requirement for UVR8, HY5, and HYH.2008 · DOI: 10.1104/pp.107.108456 Interaction of COP1 and UVR8 regulates UV-B-induced photomorphogenesis and stress acclimation in Arabidopsis.2009 · DOI: 10.1038/emboj.2009.4 UVR8 in Arabidopsis thaliana regulates multiple aspects of cellular differentiation during leaf development in response to ultraviolet B radiation.2009 · DOI: 10.1111/j.1469-8137.2009.02855.x Negative feedback regulation of UV-B-induced photomorphogenesis and stress acclimation in Arabidopsis.2010 · DOI: 10.1073/pnas.0914532107 Functional interaction of the circadian clock and UV RESISTANCE LOCUS 8-controlled UV-B signaling pathways in Arabidopsis thaliana.2011 · DOI: 10.1111/j.1365-313x.2011.04573.x Perception of UV-B by the Arabidopsis UVR8 protein.2011 · DOI: 10.1126/science.1200660 UVR8 mediates UV-B-induced Arabidopsis defense responses against Botrytis cinerea by controlling sinapate accumulation.2012 · DOI: 10.1093/mp/sss025 C-terminal region of the UV-B photoreceptor UVR8 initiates signaling through interaction with the COP1 protein.2012 · DOI: 10.1073/pnas.1210898109 In vivo function of tryptophans in the Arabidopsis UV-B photoreceptor UVR8.2012 · DOI: 10.1105/tpc.112.101451 The UV-B photoreceptor UVR8 promotes photosynthetic efficiency in Arabidopsis thaliana exposed to elevated levels of UV-B.2012 · DOI: 10.1007/s11120-012-9785-y

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_033513 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009411 response to UV Biological Process

GO:0009649 entrainment of circadian clock Biological Process

GO:0010224 response to UV-B Biological Process

GO:0000785 chromatin Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009536 plastid Cellular Component

GO:0003682 chromatin binding Molecular Function

GO:0005085 guanyl-nucleotide exchange factor activity Molecular Function

GO:0009881 photoreceptor activity Molecular Function

GO:0042802 identical protein binding Molecular Function

KEGG gene cross-reference

ath:AT5G63860

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.

Mitochondrion0.781

Rank 1 · LXL04_033513 · OH-1004

Cytoplasm0.110

Rank 2 · LXL04_033513 · OH-1004

Nucleus0.099

Rank 3 · LXL04_033513 · OH-1004

Plastid0.078

Rank 4 · LXL04_033513 · OH-1004

Peroxisome0.024

Rank 5 · LXL04_033513 · 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.

PF25390.2WD40_RLD54-444 aa

PF00415.25RCC156-100 aa

PF13540.13RCC1_289-116 aa

PF00415.25RCC1104-152 aa

PF13540.13RCC1_2139-168 aa

PF00415.25RCC1155-204 aa

PF13540.13RCC1_2197-221 aa

PF00415.25RCC1210-267 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_033513	`PF25390.2`	WD40_RLD	54	444	2.9e-86	290.8
LXL04_033513	`PF00415.25`	RCC1	56	100	3.4e-75	249.1
LXL04_033513	`PF13540.13`	RCC1_2	89	116	1.2e-49	165.6
LXL04_033513	`PF00415.25`	RCC1	104	152	3.4e-75	249.1
LXL04_033513	`PF13540.13`	RCC1_2	139	168	1.2e-49	165.6
LXL04_033513	`PF00415.25`	RCC1	155	204	3.4e-75	249.1
LXL04_033513	`PF13540.13`	RCC1_2	197	221	1.2e-49	165.6
LXL04_033513	`PF00415.25`	RCC1	210	267	3.4e-75	249.1
LXL04_033513	`PF13540.13`	RCC1_2	307	333	1.2e-49	165.6
LXL04_033513	`PF00415.25`	RCC1	321	370	3.4e-75	249.1
LXL04_033513	`PF13540.13`	RCC1_2	357	381	1.2e-49	165.6
LXL04_033513	`PF00415.25`	RCC1	413	447	3.4e-75	249.1

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
`Q9FN03`	Arabidopsis thaliana	Ultraviolet-B receptor UVR8	33.424%	Swiss-Prot	moderate database homology

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