LXL04_005973 | RubberDandelionOmics

Gene overview

LXL04_005973

Reference: OH-1004 Chr: Chr01 Coordinates: 176513031-176517428 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2328 bp · LXL04_005973|LXL04_005973|OH1004|cDNA

ATGGGTGATAGTGATCACTTACACGAAGAACACTTCGACGTCCTCACAAAAACTGGTGAAAAAACTGGCTTCTCCAAACCCAGGGGAGCTGTTCACAGAGATGGGGATTACCACCGAGCTGTTCATGTATGGATTTTTGCCGAAAGTACACAACAACTTCTTCTACAACGACGAGCTGATTGCAAGGATTCATGGCCTGGATTATGGGATATCTCTAGCGCTGGTCATGTATCTGCTGGCGATTCATCCCTCATCTCCGC...

CDS

Download CDS FASTA

2328 bp · LXL04_005973|LXL04_005973|OH1004|CDS

ATGGGTGATAGTGATCACTTACACGAAGAACACTTCGACGTCCTCACAAAAACTGGTGAAAAAACTGGCTTCTCCAAACCCAGGGGAGCTGTTCACAGAGATGGGGATTACCACCGAGCTGTTCATGTATGGATTTTTGCCGAAAGTACACAACAACTTCTTCTACAACGACGAGCTGATTGCAAGGATTCATGGCCTGGATTATGGGATATCTCTAGCGCTGGTCATGTATCTGCTGGCGATTCATCCCTCATCTCCGC...

Protein

Download Protein FASTA

775 aa · LXL04_005973|LXL04_005973|OH1004|PROTEIN

MGDSDHLHEEHFDVLTKTGEKTGFSKPRGAVHRDGDYHRAVHVWIFAESTQQLLLQRRADCKDSWPGLWDISSAGHVSAGDSSLISARRELQEELGLTLPNDAFELLFVFLQQSVTNNGSFINNEFDDVYLVTTVSPIPLEAFVLQESEVSAVKYISIEEYKQALAKEDPNYVPYSLEGQYGQLFDIISKRYNCNVEAKSLDLQKKLNRYAPISLTAELTGLTKEDMEALVLLIQAARLMDDIFHHQVWFANPSLKEWLK...

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_005973`
TK1151 ID	TkA01G003690
OH-1004 ID	LXL04_005973
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.700
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_005973

Location Chr01:176513031-176517428 (+)

Description Similar to NUDT3: Nudix hydrolase 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g79690`	Probably mediates the hydrolysis of some nucleoside diphosphate derivatives.	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_005973 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000325 plant-type vacuole Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005829 cytosol Cellular Component

GO:0008239 dipeptidyl-peptidase activity Molecular Function

GO:0016787 hydrolase activity Molecular Function

GO:0016791 phosphatase activity Molecular Function

GO:0046872 metal ion binding Molecular Function

KEGG gene cross-reference

ath:AT1G79690

bth:BT_1846

caby:Cabys_2252

lin:lin0387

lmo:lmo0368

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.

Cytoplasm0.669

Rank 1 · LXL04_005973 · OH-1004

Nucleus0.273

Rank 2 · LXL04_005973 · OH-1004

Peroxisome0.121

Rank 3 · LXL04_005973 · OH-1004

Mitochondrion0.102

Rank 4 · LXL04_005973 · OH-1004

Cell membrane0.059

Rank 5 · LXL04_005973 · 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.

PF00293.35NUDIX37-171 aa

PF03571.22Peptidase_M49395-601 aa

PF30221.1DUF8614402-752 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005973	`PF00293.35`	NUDIX	37	171	7e-17	62.4
LXL04_005973	`PF03571.22`	Peptidase_M49	395	601	5.2e-08	32.5
LXL04_005973	`PF30221.1`	DUF8614	402	752	1.9e-14	54.1

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
`Q8L831`	Arabidopsis thaliana	Nudix hydrolase 3	70.687%	Swiss-Prot	strong database homology

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