LXL04_016129 | RubberDandelionOmics

Gene overview

LXL04_016129

Reference: OH-1004 Chr: Chr03 Coordinates: 111703052-111708637 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1563 bp · LXL04_016129|LXL04_016129|OH1004|cDNA

ATGGGGTCTAAACCAGTAGAGTATCTAATAGAGGCTTCATCAGGGGCACATTTTTCAGGATTTCACATGAATGGGATGCAGGCAAGAAATTTACAGGAGGGTCAAGCAACAACTTCAGTTACAGAAAATGTGCATAAGCAACCTTTTATTATTGGGGTTGCTGGAGGGGCAGCTTCAGGGAAGACAACTGTTTGTGATATGATAATTGAGCAGCTTCATGATCAGCGTGTTGTACTTGTCAACCAGGACTCATTCTACCA...

CDS

Download CDS FASTA

1563 bp · LXL04_016129|LXL04_016129|OH1004|CDS

ATGGGGTCTAAACCAGTAGAGTATCTAATAGAGGCTTCATCAGGGGCACATTTTTCAGGATTTCACATGAATGGGATGCAGGCAAGAAATTTACAGGAGGGTCAAGCAACAACTTCAGTTACAGAAAATGTGCATAAGCAACCTTTTATTATTGGGGTTGCTGGAGGGGCAGCTTCAGGGAAGACAACTGTTTGTGATATGATAATTGAGCAGCTTCATGATCAGCGTGTTGTACTTGTCAACCAGGACTCATTCTACCA...

Protein

Download Protein FASTA

520 aa · LXL04_016129|LXL04_016129|OH1004|PROTEIN

MGSKPVEYLIEASSGAHFSGFHMNGMQARNLQEGQATTSVTENVHKQPFIIGVAGGAASGKTTVCDMIIEQLHDQRVVLVNQDSFYHNLTPEELTRLLSVVEMLRLWKAVDIPKYDFRSYKNNISRRVNPSDVIILEGILIFHDPRVRDLMNMKIFVDTDADVRLARRIRRDTGEKGRDIGMVLDQYSKFVKPAFDDFILPTKKYADIIIPRGGDNHVAIDLIVQHIRTKLGQHDLCKIYPNLYVIHSTFQIRGMHTLIR...

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_016129`
TK1151 ID	TkA02G186580
OH-1004 ID	LXL04_016129
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	96.200
Protein coverage (%)	TK1151 96.581 / OH-1004 83.846 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_016129

Location Chr03:111703052-111708637 (-)

Description Similar to UKL4: Uridine kinase-like protein 4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g26510`	Involved in the pyrimidine salvage pathway.	No verified direct reference in this release
`At1g55810`	Involved in the pyrimidine salvage pathway.	No verified direct reference in this release
`At3g27190`	Involved in the pyrimidine salvage pathway.	Plastid uridine salvage activity is required for photoassimilate allocation and partitioning in Arabidopsis.2011 · DOI: 10.1105/tpc.111.085829 Pyrimidine Salvage: Physiological Functions and Interaction with Chloroplast Biogenesis.2019 · DOI: 10.1104/pp.19.00329
`At5g40870`	Involved in the pyrimidine salvage pathway (Probable).	Functional characterization of a gene encoding a dual domain for uridine kinase and uracil phosphoribosyltransferase in Arabidopsis thaliana.2007 · DOI: 10.1007/s11103-006-9101-3 Plastid uridine salvage activity is required for photoassimilate allocation and partitioning in Arabidopsis.2011 · DOI: 10.1105/tpc.111.085829 Pyrimidine Salvage: Physiological Functions and Interaction with Chloroplast Biogenesis.2019 · DOI: 10.1104/pp.19.00329
`At3g27440`	Involved in the pyrimidine salvage pathway.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_016129 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006207 'de novo' pyrimidine nucleobase biosynthetic process Biological Process

GO:0044206 UMP salvage Biological Process

GO:0044211 CTP salvage Biological Process

GO:0071456 cellular response to hypoxia Biological Process

GO:1901141 regulation of lignin biosynthetic process Biological Process

GO:2000904 regulation of starch metabolic process Biological Process

GO:2001006 regulation of cellulose biosynthetic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0004845 uracil phosphoribosyltransferase activity Molecular Function

GO:0004849 uridine kinase activity Molecular Function

KEGG gene cross-reference

ath:AT1G55810

ath:AT3G27190

ath:AT3G27440

ath:AT4G26510

ath:AT5G40870

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.

Cytoplasm0.525

Rank 1 · LXL04_016129 · OH-1004

Nucleus0.276

Rank 2 · LXL04_016129 · OH-1004

Mitochondrion0.171

Rank 3 · LXL04_016129 · OH-1004

Peroxisome0.099

Rank 4 · LXL04_016129 · OH-1004

Cell membrane0.074

Rank 5 · LXL04_016129 · 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.

PF00485.25PRK93-218 aa

PF14681.13UPRTase248-432 aa

PF01722.24BolA435-510 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_016129	`PF00485.25`	PRK	93	218	5.3e-37	128.3
LXL04_016129	`PF14681.13`	UPRTase	248	432	2.1e-63	214.2
LXL04_016129	`PF01722.24`	BolA	435	510	4.4e-29	101.3

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
`O65583`	Arabidopsis thaliana	Uridine kinase-like protein 4	80.837%	Swiss-Prot	strong database homology
`Q8VYB2`	Arabidopsis thaliana	Uridine kinase-like protein 3	80.132%	Swiss-Prot	strong database homology
`Q9LK34`	Arabidopsis thaliana	Uridine/cytidine kinase UKL1, chloroplastic	68.831%	Swiss-Prot	strong database homology
`Q9FKS0`	Arabidopsis thaliana	Uridine/cytidine kinase UKL1, chloroplastic	69.264%	Swiss-Prot	strong database homology
`Q9LTY6`	Arabidopsis thaliana	Uridine kinase-like protein 5	73.645%	Swiss-Prot	strong database homology

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