LXL04_001240 | RubberDandelionOmics

Gene overview

LXL04_001240

Reference: OH-1004 Chr: Chr01 Coordinates: 22815533-22817247 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1068 bp · LXL04_001240|LXL04_001240|OH1004|cDNA

ATGGGCGAACCAAAGAAGATAATCATAGACACCGACCCTGGCATCGATGATGCTATGGCAATATTTCTGGCATTAAGGTCACCAGAAATCACAGTGATTGGGCTTACAACTATCTATGGCAATGTTTACACCACACTTGCCACTAGAAACGCACTGCATCTGTTGGAGGTAGCTGAAAGAACAGATATCCCAGTTGCAGAAGGATCTCATGTCAGTTACATGGTACATCTCCTTCCATTTCCATTACCTTCATGTACTTG...

CDS

Download CDS FASTA

1068 bp · LXL04_001240|LXL04_001240|OH1004|CDS

ATGGGCGAACCAAAGAAGATAATCATAGACACCGACCCTGGCATCGATGATGCTATGGCAATATTTCTGGCATTAAGGTCACCAGAAATCACAGTGATTGGGCTTACAACTATCTATGGCAATGTTTACACCACACTTGCCACTAGAAACGCACTGCATCTGTTGGAGGTAGCTGAAAGAACAGATATCCCAGTTGCAGAAGGATCTCATGTCAGTTACATGGTACATCTCCTTCCATTTCCATTACCTTCATGTACTTG...

Protein

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355 aa · LXL04_001240|LXL04_001240|OH1004|PROTEIN

MGEPKKIIIDTDPGIDDAMAIFLALRSPEITVIGLTTIYGNVYTTLATRNALHLLEVAERTDIPVAEGSHVSYMVHLLPFPLPSCTCYLIYFRFTKKNIFLLSFSPCVKKATKLRVADFVHGVDGLGNQNFPQPKSKPIEKSAAEYLVEQANLHPGEITVVALGPLTNIALAIQLDPTFTKNIGQIVLLGGAFAVNGNVNPAAEANIFGDPEAADIVFTSGADVLAVGINVTHQVIMKDSELEIMAESEGIFSKYLCKIL...

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_001240`
TK1151 ID	TkA01G551750
OH-1004 ID	LXL04_001240
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	89.300
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_001240

Location Chr01:22815533-22817247 (+)

Description Similar to URH2: Probable uridine nucleosidase 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g05620`	Involved in pyrimidine breakdown, especially in response to dark stress.	Arabidopsis nucleoside hydrolases involved in intracellular and extracellular degradation of purines.2011 · DOI: 10.1111/j.1365-313x.2010.04455.x Arabidopsis thaliana nucleosidase mutants provide new insights into nucleoside degradation.2011 · DOI: 10.1111/j.1469-8137.2011.03711.x AMP and GMP Catabolism in Arabidopsis Converge on Xanthosine, Which Is Degraded by a Nucleoside Hydrolase Heterocomplex.2019 · DOI: 10.1105/tpc.18.00899
`At2g36310`	Involved in purine and pyrimidine breakdown rather than in pyrimidine salvage, especially in response to dark stress.	Uridine-ribohydrolase is a key regulator in the uridine degradation pathway of Arabidopsis.2009 · DOI: 10.1105/tpc.108.062612 Arabidopsis nucleoside hydrolases involved in intracellular and extracellular degradation of purines.2011 · DOI: 10.1111/j.1365-313x.2010.04455.x Arabidopsis thaliana nucleosidase mutants provide new insights into nucleoside degradation.2011 · DOI: 10.1111/j.1469-8137.2011.03711.x AMP and GMP Catabolism in Arabidopsis Converge on Xanthosine, Which Is Degraded by a Nucleoside Hydrolase Heterocomplex.2019 · DOI: 10.1105/tpc.18.00899

Rice

Reference gene ID	Possible function	Papers / DOI
`Os08g0557900`	Involved in pyrimidine breakdown.	No verified direct reference in this release
`Os09g0567900`	Involved in pyrimidine breakdown.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_001240 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006148 inosine catabolic process Biological Process

GO:0006152 purine nucleoside catabolic process Biological Process

GO:0006206 pyrimidine nucleobase metabolic process Biological Process

GO:0006218 uridine catabolic process Biological Process

GO:0010150 leaf senescence Biological Process

GO:0015949 nucleobase-containing small molecule interconversion Biological Process

GO:0042454 ribonucleoside catabolic process Biological Process

GO:0005829 cytosol Cellular Component

GO:0008477 purine nucleosidase activity Molecular Function

GO:0035251 UDP-glucosyltransferase activity Molecular Function

GO:0042802 identical protein binding Molecular Function

GO:0042803 protein homodimerization activity Molecular Function

KEGG gene cross-reference

ath:AT1G05620

ath:AT2G36310

dosa:Os08g0557900

dosa:Os09g0567900

stt:t2212

sty:STY0706

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.

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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.

Cytoplasm0.725

Rank 1 · LXL04_001240 · OH-1004

Nucleus0.289

Rank 2 · LXL04_001240 · OH-1004

Peroxisome0.104

Rank 3 · LXL04_001240 · OH-1004

Mitochondrion0.092

Rank 4 · LXL04_001240 · OH-1004

Cell membrane0.043

Rank 5 · LXL04_001240 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF01156.25IU_nuc_hydro7-345 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_001240	`PF01156.25`	IU_nuc_hydro	7	345	1.6e-90	304.5

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
`Q8LAC4`	Arabidopsis thaliana	Probable uridine nucleosidase 2	69.577%	Swiss-Prot	strong database homology
`Q9SJM7`	Arabidopsis thaliana	Uridine nucleosidase 1	46.742%	Swiss-Prot	moderate database homology
`Q6ZJ05`	Oryza sativa subsp. japonica	Probable uridine nucleosidase 1	45.977%	Swiss-Prot	moderate database homology
`Q652Q8`	Oryza sativa subsp. japonica	Probable uridine nucleosidase 2	44.034%	Swiss-Prot	moderate database homology

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