LXL04_004580 | RubberDandelionOmics

Gene overview

LXL04_004580

Reference: OH-1004 Chr: Chr01 Coordinates: 140976191-140977530 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

594 bp · LXL04_004580|LXL04_004580|OH1004|cDNA

ATGGCTTCTCCGGCAGCAAGTCTGTCATGGAATTCTTCTTCATGGCTTAATAACCGCACCCTAACAAGGACCCCCAACGAAGGCATCCAACTTTCCGATAAAAGCTCAGCCTTTGTGATTCTTGCTCAAAAGAAAGCGAAGAAAACACGAAAGATAATATTGATTGAAGACGTTACTGATGTCGGGAAGAAAGGGCAGCTTTTGGATGTCAAAGCTGGGTTTTACAGGAACTTTCTGCATCCTTCGGGCAAGGCGCGGAT...

CDS

Download CDS FASTA

594 bp · LXL04_004580|LXL04_004580|OH1004|CDS

ATGGCTTCTCCGGCAGCAAGTCTGTCATGGAATTCTTCTTCATGGCTTAATAACCGCACCCTAACAAGGACCCCCAACGAAGGCATCCAACTTTCCGATAAAAGCTCAGCCTTTGTGATTCTTGCTCAAAAGAAAGCGAAGAAAACACGAAAGATAATATTGATTGAAGACGTTACTGATGTCGGGAAGAAAGGGCAGCTTTTGGATGTCAAAGCTGGGTTTTACAGGAACTTTCTGCATCCTTCGGGCAAGGCGCGGAT...

Protein

Download Protein FASTA

197 aa · LXL04_004580|LXL04_004580|OH1004|PROTEIN

MASPAASLSWNSSSWLNNRTLTRTPNEGIQLSDKSSAFVILAQKKAKKTRKIILIEDVTDVGKKGQLLDVKAGFYRNFLHPSGKARIVTPDLLKEMKVEEERIEAEKKRVKEEALQLARIFETVGAFKVKRKGGKGKQIFGSVTAQDLVDIIKAQLQRDIDKRIVSLPEIRETGEYIAELKLHPDVTAEVRLNVFAN

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_004580`
TK1151 ID	TkA01G132620
OH-1004 ID	LXL04_004580
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
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_004580

Location Chr01:140976191-140977530 (-)

Description Similar to RPL9: 50S ribosomal protein L9, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g44890`	Binds to the 23S rRNA.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_004580 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006412 translation Biological Process

GO:0000311 plastid large ribosomal subunit Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005840 ribosome Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0009941 chloroplast envelope Cellular Component

GO:1990904 ribonucleoprotein complex Cellular Component

GO:0003729 mRNA binding Molecular Function

GO:0003735 structural constituent of ribosome Molecular Function

GO:0019843 rRNA binding Molecular Function

KEGG gene cross-reference

ath:AT3G44890

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.

Plastid0.971

Rank 1 · LXL04_004580 · OH-1004

Mitochondrion0.035

Rank 2 · LXL04_004580 · OH-1004

Nucleus0.014

Rank 3 · LXL04_004580 · OH-1004

Cytoplasm0.009

Rank 4 · LXL04_004580 · OH-1004

Cell membrane0.007

Rank 5 · LXL04_004580 · 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.

PF01281.26Ribosomal_L9_N51-96 aa

PF03948.20Ribosomal_L9_C113-194 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_004580	`PF01281.26`	Ribosomal_L9_N	51	96	6e-16	58.4
LXL04_004580	`PF03948.20`	Ribosomal_L9_C	113	194	1.1e-20	74.5

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.

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Protein	Organism	Description	Identity	Database	Confidence
`P25864`	Arabidopsis thaliana	Large ribosomal subunit protein bL9c	71.574%	Swiss-Prot	strong database homology

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