LXL04_000680 | RubberDandelionOmics

Gene overview

LXL04_000680

Reference: OH-1004 Chr: Chr01 Coordinates: 12505277-12507078 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

657 bp · LXL04_000680|LXL04_000680|OH1004|cDNA

ATGTGCAACCAACAAAGCCCACAAGAACAGAAAGCCCAATTATGTAAAAATTGGGCCAACCTTCTAAACTGTAAATACGGATTCTGTTCTCTTCCCCTACTAGGGTTTCTAAAAGTTAATCAATCCCGTCGTTCCCAGACTAGGGTTTTCAAGTATTCAACCAGTGCGGCAGCAAGTAACGGCGAACACTTCTCCGTCACCATGGGTCGTATGCACAGTTCCGGCAAAGGTATTTCAGCATCAGCTAAGCCATATAAGAG...

CDS

Download CDS FASTA

657 bp · LXL04_000680|LXL04_000680|OH1004|CDS

ATGTGCAACCAACAAAGCCCACAAGAACAGAAAGCCCAATTATGTAAAAATTGGGCCAACCTTCTAAACTGTAAATACGGATTCTGTTCTCTTCCCCTACTAGGGTTTCTAAAAGTTAATCAATCCCGTCGTTCCCAGACTAGGGTTTTCAAGTATTCAACCAGTGCGGCAGCAAGTAACGGCGAACACTTCTCCGTCACCATGGGTCGTATGCACAGTTCCGGCAAAGGTATTTCAGCATCAGCTAAGCCATATAAGAG...

Protein

Download Protein FASTA

218 aa · LXL04_000680|LXL04_000680|OH1004|PROTEIN

MCNQQSPQEQKAQLCKNWANLLNCKYGFCSLPLLGFLKVNQSRRSQTRVFKYSTSAAASNGEHFSVTMGRMHSSGKGISASAKPYKRTPPSWLKISPQDVQDSICKFAKKGLTPSQIGVILRDSHGIAQVNSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVWKYESTTASTLVA

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_000680`
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_000680

Location Chr01:12505277-12507078 (-)

Description Similar to RPS13: 40S ribosomal protein S13

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g60770`	Small ribosomal subunit protein uS15z.	No verified direct reference in this release
`At4g00100`	Small ribosomal subunit protein uS15y.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os08g0117300`	Small ribosomal subunit protein uS15y.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_000680 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000911 cytokinesis by cell plate formation Biological Process

GO:0006412 translation Biological Process

GO:0009965 leaf morphogenesis Biological Process

GO:0010090 trichome morphogenesis Biological Process

GO:0005730 nucleolus Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0022626 cytosolic ribosome Cellular Component

GO:0022627 cytosolic small ribosomal subunit Cellular Component

GO:0003729 mRNA binding Molecular Function

KEGG gene cross-reference

ath:AT3G60770

ath:AT4G00100

dosa:Os08g0117300

gmx:100790163

gmx:547745

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.

Mitochondrion0.821

Rank 1 · LXL04_000680 · OH-1004

Plastid0.129

Rank 2 · LXL04_000680 · OH-1004

Cytoplasm0.045

Rank 3 · LXL04_000680 · OH-1004

Nucleus0.039

Rank 4 · LXL04_000680 · OH-1004

Extracellular0.009

Rank 5 · LXL04_000680 · 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.

PF08069.18Ribosomal_S13_N68-127 aa

PF00312.28Ribosomal_S15141-213 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_000680	`PF08069.18`	Ribosomal_S13_N	68	127	5.9e-31	107.0
LXL04_000680	`PF00312.28`	Ribosomal_S15	141	213	3.6e-15	56.6

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
`P59223`	Arabidopsis thaliana	Small ribosomal subunit protein uS15z	93.377%	Swiss-Prot	moderate database homology
`P59224`	Arabidopsis thaliana	Small ribosomal subunit protein uS15y	92.715%	Swiss-Prot	moderate database homology
`Q69UI1`	Oryza sativa subsp. japonica	Small ribosomal subunit protein uS15y	85.430%	Swiss-Prot	moderate database homology

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