LXL04_017017 | RubberDandelionOmics

Gene overview

LXL04_017017

Reference: OH-1004 Chr: Chr03 Coordinates: 138994915-138997374 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1432 bp · LXL04_017017|LXL04_017017|OH1004|cDNA

AGCTATATTGTCAACAATGGAGTCACTCATTCTTCAACTACACGAGATATCCGCCGTGAAATTTGGAAACTTTAAGTTGAAATCCGGCATTTCGTCCCCCATATACATCGACCTCCGCCTCATCGTCTCATACCCAAAACTCCTCCGCCTCATATCCGACACCATTATCTCCACCCTCCCTCCTTCCGCCGTCTACGACGTCATCTGCGGCGTCCCTTACACCGCCCTCCCCATTGCCACCGTCATATCCACATCTTCCG...

CDS

Download CDS FASTA

1425 bp · LXL04_017017|LXL04_017017|OH1004|CDS

TTGTCAACAATGGAGTCACTCATTCTTCAACTACACGAGATATCCGCCGTGAAATTTGGAAACTTTAAGTTGAAATCCGGCATTTCGTCCCCCATATACATCGACCTCCGCCTCATCGTCTCATACCCAAAACTCCTCCGCCTCATATCCGACACCATTATCTCCACCCTCCCTCCTTCCGCCGTCTACGACGTCATCTGCGGCGTCCCTTACACCGCCCTCCCCATTGCCACCGTCATATCCACATCTTCCGATGTCCC...

Protein

Download Protein FASTA

474 aa · LXL04_017017|LXL04_017017|OH1004|PROTEIN

MSTMESLILQLHEISAVKFGNFKLKSGISSPIYIDLRLIVSYPKLLRLISDTIISTLPPSAVYDVICGVPYTALPIATVISTSSDVPMLMRRKEIKDYGTSKVIEGAFQPNQICLVVEDLVTSGTSVLETAAPLRAAGLKVNDVVVLIDREQGGRENLAANGITLHSMIKLTDMVRVLREKGRVSEETEAMVHKFLEENKKVATVVAPPVSTFIKARIPYGDRAKLAKNPTGKKLFEIMVKKESNLCLSADVSTASELLA...

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_017017`
TK1151 ID	TkA02G084010
OH-1004 ID	LXL04_017017
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.600
Protein coverage (%)	TK1151 100.000 / OH-1004 99.367 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_017017

Location Chr03:138994915-138997374 (+)

Description Similar to PYR5-6: Uridine 5'-monophosphate synthase (Fragment)

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g54470`	Uridine 5'-monophosphate synthase.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0951200`	Uridine 5'-monophosphate synthase.	No verified direct reference in this release
`Os01g0951400`	Uridine 5'-monophosphate synthase.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_017017 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

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

GO:0006222 UMP biosynthetic process Biological Process

GO:0016036 cellular response to phosphate starvation Biological Process

GO:0019856 pyrimidine nucleobase biosynthetic process Biological Process

GO:0044205 'de novo' UMP biosynthetic process Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0004588 orotate phosphoribosyltransferase activity Molecular Function

GO:0004590 orotidine-5'-phosphate decarboxylase activity Molecular Function

KEGG gene cross-reference

ath:AT3G54470

dosa:Os01g0951200

dosa:Os01g0951400

pon:100173867

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.

Cytoplasm0.667

Rank 1 · LXL04_017017 · OH-1004

Nucleus0.304

Rank 2 · LXL04_017017 · OH-1004

Mitochondrion0.117

Rank 3 · LXL04_017017 · OH-1004

Peroxisome0.099

Rank 4 · LXL04_017017 · OH-1004

Cell membrane0.046

Rank 5 · LXL04_017017 · 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.

PF00156.34Pribosyltran64-156 aa

PF00215.31OMPdecase244-462 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_017017	`PF00156.34`	Pribosyltran	64	156	6.5e-07	29.5
LXL04_017017	`PF00215.31`	OMPdecase	244	462	1.1e-60	206.1

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
`Q42586`	Arabidopsis thaliana	Uridine 5'-monophosphate synthase	76.632%	Swiss-Prot	strong database homology
`Q9LDN2`	Oryza sativa subsp. japonica	Uridine 5'-monophosphate synthase	69.979%	Swiss-Prot	strong database homology
`Q8RZA1`	Oryza sativa subsp. japonica	Uridine 5'-monophosphate synthase	66.808%	Swiss-Prot	strong database homology

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