LXL04_024507 | RubberDandelionOmics

Gene overview

LXL04_024507

Reference: OH-1004 Chr: Chr05 Coordinates: 92358356-92360179 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1125 bp · LXL04_024507|LXL04_024507|OH1004|cDNA

ATGGCGGACGCCATTTGTAGAGTTCTCCGGGACGGAGCATTGGAAGGTGAACACGCAACGTCTCTCACGATAAACGATTCTGTTGATTCACCGTTCGGTCCCATCGTTTTCGATTACATTTTCACTCAACTATCGTCATTCATTTCGTCCGGGAAGTCTCAATCGCGAGGCATTGTGCTCCTTGCTTTCGCTAAGAGTCCTTCGTCCACAGCTGAATTGCTTAAAACCAGAGGAACTGATATCGCCACATCGCATGAATG...

CDS

Download CDS FASTA

1125 bp · LXL04_024507|LXL04_024507|OH1004|CDS

ATGGCGGACGCCATTTGTAGAGTTCTCCGGGACGGAGCATTGGAAGGTGAACACGCAACGTCTCTCACGATAAACGATTCTGTTGATTCACCGTTCGGTCCCATCGTTTTCGATTACATTTTCACTCAACTATCGTCATTCATTTCGTCCGGGAAGTCTCAATCGCGAGGCATTGTGCTCCTTGCTTTCGCTAAGAGTCCTTCGTCCACAGCTGAATTGCTTAAAACCAGAGGAACTGATATCGCCACATCGCATGAATG...

Protein

Download Protein FASTA

374 aa · LXL04_024507|LXL04_024507|OH1004|PROTEIN

MADAICRVLRDGALEGEHATSLTINDSVDSPFGPIVFDYIFTQLSSFISSGKSQSRGIVLLAFAKSPSSTAELLKTRGTDIATSHEWLSVVDCYTDPLGWKERLKERGAIKTPSTEASLNVRLCKDVRNLEDLFSLILASGKGLIGEGKTRFSVAIDSVSEMLRHTSLSSVARLLNNLRSHEKVSSIFWLLHSDLHDIKTTAAFEYMSSMVANVKPLTTTSNTSRDNSENPSFLEQNYKKGQFHASLKRRNGRVRVMVEE...

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_024507`
TK1151 ID	TkA06G136820
OH-1004 ID	LXL04_024507
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.500
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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_024507

Location Chr05:92358356-92360179 (-)

Description Similar to ELP5: Elongator complex protein 5

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g18410`	Component of the elongator complex which is required for multiple tRNA modifications, including mcm5U (5-methoxycarbonylmethyl uridine), mcm5s2U (5-methoxycarbonylmethyl-2-thiouridine), and ncm5U (5-carbamoylmethyl uridine) (By similarity).	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_024507 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0002098 tRNA wobble uridine modification Biological Process

GO:0006400 tRNA modification Biological Process

GO:0005634 nucleus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0033588 elongator holoenzyme complex Cellular Component

KEGG gene cross-reference

ath:AT2G18410

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.

Nucleus0.590

Rank 1 · LXL04_024507 · OH-1004

Cytoplasm0.521

Rank 2 · LXL04_024507 · OH-1004

Mitochondrion0.056

Rank 3 · LXL04_024507 · OH-1004

Peroxisome0.040

Rank 4 · LXL04_024507 · OH-1004

Golgi apparatus0.028

Rank 5 · LXL04_024507 · 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.

PF10483.16Elong_Iki1149-320 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_024507	`PF10483.16`	Elong_Iki1	149	320	2e-13	51.3

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.

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Protein	Organism	Description	Identity	Database	Confidence
`F4IQJ2`	Arabidopsis thaliana	Elongator complex protein 5	50.815%	Swiss-Prot	strong database homology

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