LXL04_025917 | RubberDandelionOmics

Gene overview

LXL04_025917

Reference: OH-1004 Chr: Chr05 Coordinates: 118542971-118544113 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

744 bp · LXL04_025917|LXL04_025917|OH1004|cDNA

ATGGCAACTCAAATCAGTAAGAAGCGAAAGTTTGTCGCTGATGGTGTCTTCTTCGCTGAGCTGAACGAAGTTCTTACTAGAGAACTCGCAGAAGATGGTTACTCTGGTGTTGAAGTTAGGGTTACACCCATGCGCACTGAGATCATCATCAGGGCCACCCGTACCCAAAATGTTCTTGGTGAGAAAGGAAGAAGAATTAGAGAGTTGACGTCTCTGGTTCAGAAACGTTTCAAGTTCCCAGAAAACAGTGTTGAACTCTA...

CDS

Download CDS FASTA

744 bp · LXL04_025917|LXL04_025917|OH1004|CDS

ATGGCAACTCAAATCAGTAAGAAGCGAAAGTTTGTCGCTGATGGTGTCTTCTTCGCTGAGCTGAACGAAGTTCTTACTAGAGAACTCGCAGAAGATGGTTACTCTGGTGTTGAAGTTAGGGTTACACCCATGCGCACTGAGATCATCATCAGGGCCACCCGTACCCAAAATGTTCTTGGTGAGAAAGGAAGAAGAATTAGAGAGTTGACGTCTCTGGTTCAGAAACGTTTCAAGTTCCCAGAAAACAGTGTTGAACTCTA...

Protein

Download Protein FASTA

247 aa · LXL04_025917|LXL04_025917|OH1004|PROTEIN

MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSLVQKRFKFPENSVELYAERVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFVMENGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVKEYIDSAVRHVLLRQGVLGIKVKIMLDWDPTGKLGPKTPLPDNVIIHMPKDDVIALPPKEVEEYRPPLVIADEPIPMSVPVSV

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_025917`
TK1151 ID	TkA06G035910
OH-1004 ID	LXL04_025917
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	100.000
Protein coverage (%)	TK1151 94.472 / OH-1004 76.113 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_025917

Location Chr05:118542971-118544113 (+)

Description Similar to RPS3A: 40S ribosomal protein S3-1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g31610`	Small ribosomal subunit protein uS3z.	No verified direct reference in this release
`At5g35530`	Small ribosomal subunit protein uS3x.	No verified direct reference in this release
`At3g53870`	Small ribosomal subunit protein uS3y.	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_025917 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006281 DNA repair Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006412 translation Biological Process

GO:0006417 regulation of translation Biological Process

GO:0051301 cell division Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0005743 mitochondrial inner membrane Cellular Component

GO:0005777 peroxisome Cellular Component

GO:0005819 spindle Cellular Component

GO:0005829 cytosol Cellular Component

KEGG gene cross-reference

ath:AT2G31610

ath:AT3G53870

ath:AT5G35530

ssc:733671

xla:444841

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.

Cytoplasm0.874

Rank 1 · LXL04_025917 · OH-1004

Nucleus0.269

Rank 2 · LXL04_025917 · OH-1004

Endoplasmic reticulum0.093

Rank 3 · LXL04_025917 · OH-1004

Cell membrane0.032

Rank 4 · LXL04_025917 · OH-1004

Mitochondrion0.027

Rank 5 · LXL04_025917 · 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.

PF07650.24KH_220-94 aa

PF00189.26Ribosomal_S3_C106-188 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025917	`PF07650.24`	KH_2	20	94	5.6e-15	55.6
LXL04_025917	`PF00189.26`	Ribosomal_S3_C	106	188	5.4e-27	94.9

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
`Q9SIP7`	Arabidopsis thaliana	Small ribosomal subunit protein uS3z	86.831%	Swiss-Prot	strong database homology
`Q9FJA6`	Arabidopsis thaliana	Small ribosomal subunit protein uS3x	83.267%	Swiss-Prot	strong database homology
`Q9M339`	Arabidopsis thaliana	Small ribosomal subunit protein uS3y	92.593%	Swiss-Prot	strong database homology

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