LXL04_018427 | RubberDandelionOmics

Gene overview

LXL04_018427

Reference: OH-1004 Chr: Chr04 Coordinates: 12744937-12745506 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

369 bp · LXL04_018427|LXL04_018427|OH1004|cDNA

ATGGCGTATGCAGCAATGAAGCCAACAAAGCCAGGGCTAGAAGAGCCCCAAGAGCAGATTCACAAGATCAGAATCACTCTTTCCTCGAAGAACGTTAAGAACCTCGAAAAAGTTTGTGCCGATTTGGTTCGTGGTGCCAAAGACAAGAAGCTAAGAGTGAAAGGACCCGTTAGAATGCCAACAAAGGTTCTTAACATCACTACCAGGAAGTCCCCTTGTGGTGAAGGAACAAACACATGGGACAGATTTGAGCTACGTGT...

CDS

Download CDS FASTA

369 bp · LXL04_018427|LXL04_018427|OH1004|CDS

ATGGCGTATGCAGCAATGAAGCCAACAAAGCCAGGGCTAGAAGAGCCCCAAGAGCAGATTCACAAGATCAGAATCACTCTTTCCTCGAAGAACGTTAAGAACCTCGAAAAAGTTTGTGCCGATTTGGTTCGTGGTGCCAAAGACAAGAAGCTAAGAGTGAAAGGACCCGTTAGAATGCCAACAAAGGTTCTTAACATCACTACCAGGAAGTCCCCTTGTGGTGAAGGAACAAACACATGGGACAGATTTGAGCTACGTGT...

Protein

Download Protein FASTA

122 aa · LXL04_018427|LXL04_018427|OH1004|PROTEIN

MAYAAMKPTKPGLEEPQEQIHKIRITLSSKNVKNLEKVCADLVRGAKDKKLRVKGPVRMPTKVLNITTRKSPCGEGTNTWDRFELRVHKRVIDLFSSPDVVKQITSITIEPGVEVEVTIADP

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_018427`
TK1151 ID	TkA08G059390
OH-1004 ID	LXL04_018427
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_018427

Location Chr04:12744937-12745506 (+)

Description Similar to RPS20B: 40S ribosomal protein S20-2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g47370`	Small ribosomal subunit protein uS10y.	No verified direct reference in this release
`UniProt: P49200`	Small ribosomal subunit protein uS10z/uS10x.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os06g0134000`	Small ribosomal subunit protein uS10.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_018427 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006412 translation 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:0009506 plasmodesma Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009536 plastid Cellular Component

GO:0015935 small ribosomal subunit Cellular Component

GO:0022626 cytosolic ribosome Cellular Component

GO:0022627 cytosolic small ribosomal subunit Cellular Component

GO:0098556 cytoplasmic side of rough endoplasmic reticulum membrane Cellular Component

KEGG gene cross-reference

ath:AT3G45030

ath:AT3G47370

ath:AT5G62300

dosa:Os06g0134000

ocu:100341252

ocu:100341365

ocu:100348955

ocu:100354063

rno:122772

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.

Cytoplasm0.848

Rank 1 · LXL04_018427 · OH-1004

Nucleus0.252

Rank 2 · LXL04_018427 · OH-1004

Endoplasmic reticulum0.088

Rank 3 · LXL04_018427 · OH-1004

Mitochondrion0.051

Rank 4 · LXL04_018427 · OH-1004

Cell membrane0.031

Rank 5 · LXL04_018427 · 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.

PF00338.28Ribosomal_S1024-118 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018427	`PF00338.28`	Ribosomal_S10	24	118	4.8e-29	101.2

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9STY6`	Arabidopsis thaliana	Small ribosomal subunit protein uS10y	92.562%	Swiss-Prot	strong database homology
`P49200`	Arabidopsis thaliana	Small ribosomal subunit protein uS10z/uS10x	92.500%	Swiss-Prot	strong database homology
`P35686`	Oryza sativa subsp. japonica	Small ribosomal subunit protein uS10	81.967%	Swiss-Prot	strong database homology

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