LXL04_013041 | RubberDandelionOmics

Gene overview

LXL04_013041

Reference: OH-1004 Chr: Chr03 Coordinates: 22931195-22931695 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

501 bp · LXL04_013041|LXL04_013041|OH1004|cDNA

ATGCCGCCAAAGTTTGATCCGTCACAAGTCGTCGACGTTTATGTCCGCGTCACTGGTGGTGAGGTCGGAGCGGCGAGTTCCCTCGCTCCGAAGATCGGACCACTCGGTCTCTCTCCTAAGAAGATCGGAGAAGACATAGCTAAGGAAACGGCTAAGGACTGGAAGGGTCTTAGAGTCACCGTCAAGCTTACAGTACAGAATCGTCAAGCTAAGGTTTCCGTTGTCCCCTCCGCCGCTGCATTGGTTATTAAAGCGCTCAA...

CDS

Download CDS FASTA

501 bp · LXL04_013041|LXL04_013041|OH1004|CDS

ATGCCGCCAAAGTTTGATCCGTCACAAGTCGTCGACGTTTATGTCCGCGTCACTGGTGGTGAGGTCGGAGCGGCGAGTTCCCTCGCTCCGAAGATCGGACCACTCGGTCTCTCTCCTAAGAAGATCGGAGAAGACATAGCTAAGGAAACGGCTAAGGACTGGAAGGGTCTTAGAGTCACCGTCAAGCTTACAGTACAGAATCGTCAAGCTAAGGTTTCCGTTGTCCCCTCCGCCGCTGCATTGGTTATTAAAGCGCTCAA...

Protein

Download Protein FASTA

166 aa · LXL04_013041|LXL04_013041|OH1004|PROTEIN

MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVSVVPSAAALVIKALKEPERDRKKVKNIKHSGNISLDDVIEIAKVMRPRSMAKELQGTVKEILGTCVSVGCTVDGKDPKDLQEEIADGDVEIPQD

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_013041`
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_013041

Location Chr03:22931195-22931695 (-)

Description Similar to RPL12: 60S ribosomal protein L12

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g60670`	Binds directly to 26S ribosomal RNA.	No verified direct reference in this release
`At2g37190`	Binds directly to 26S ribosomal RNA.	No verified direct reference in this release
`At3g53430`	Binds directly to 26S ribosomal RNA.	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_013041 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0002181 cytoplasmic translation Biological Process

GO:0006412 translation Biological Process

GO:0180023 cytosolic large ribosomal subunit assembly Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009536 plastid Cellular Component

KEGG gene cross-reference

ath:AT2G37190

ath:AT3G53430

ath:AT5G60670

spo:2539010

spo:2539186

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Cytoplasm0.865

Rank 1 · LXL04_013041 · OH-1004

Nucleus0.249

Rank 2 · LXL04_013041 · OH-1004

Endoplasmic reticulum0.102

Rank 3 · LXL04_013041 · OH-1004

Mitochondrion0.068

Rank 4 · LXL04_013041 · OH-1004

Cell membrane0.052

Rank 5 · LXL04_013041 · 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.

PF03946.20Ribosomal_L11_N13-70 aa

PF00298.25Ribosomal_L1175-144 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_013041	`PF03946.20`	Ribosomal_L11_N	13	70	5.4e-20	71.6
LXL04_013041	`PF00298.25`	Ribosomal_L11	75	144	1.7e-20	73.9

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9FF52`	Arabidopsis thaliana	Large ribosomal subunit protein uL11x	90.361%	Swiss-Prot	strong database homology
`P50883`	Arabidopsis thaliana	Large ribosomal subunit protein uL11z	88.554%	Swiss-Prot	strong database homology
`Q9LFH5`	Arabidopsis thaliana	Large ribosomal subunit protein uL11y	87.952%	Swiss-Prot	strong database homology

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