TkA05G003310 | RubberDandelionOmics

Gene overview

TkA05G003310

Reference: TK1151 Chr: Chr05 Coordinates: 990270-991539 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

832 bp · TkA05G003310|TK1151|cDNA

ATATCTTCATAAACCCTAGGCTTCAATCCCCCTCCCCTTAACATCTTTCTTTTTGCAGGTACCAGCAACCGCCGTCGCCATGGGTATCGATCTCGTTGCAGGTGGAAAGAGCAAGAGGACCAAAAGAACCGCCCCTAGATCCGACGATATCTACCTCAAGCTTCTCGTCAAGCTCTATCGCTTCCTAGTTAGGAGGACCGGAAGCAACTTCAATGCTGTGATTCTGAAGAGGCTTTTTATGAGCAAAGTCAACAAGCCTC...

CDS

Download CDS FASTA

564 bp · TkA05G003310|TK1151|CDS

ATGGGTATCGATCTCGTTGCAGGTGGAAAGAGCAAGAGGACCAAAAGAACCGCCCCTAGATCCGACGATATCTACCTCAAGCTTCTCGTCAAGCTCTATCGCTTCCTAGTTAGGAGGACCGGAAGCAACTTCAATGCTGTGATTCTGAAGAGGCTTTTTATGAGCAAAGTCAACAAGCCTCCGATTTCTCTATCTCGTTTGGTTCGCTACATGTCCGGAAAGGATGACAAAATTGCTGTGGTAGTTGGTACAGTTACTGA...

Protein

Download Protein FASTA

187 aa · TkA05G003310|TK1151|PROTEIN

MGIDLVAGGKSKRTKRTAPRSDDIYLKLLVKLYRFLVRRTGSNFNAVILKRLFMSKVNKPPISLSRLVRYMSGKDDKIAVVVGTVTDDVRVHEIPCIKVTALRFTETARARIEKAGGECLTFDQLALRAPLGQNTVLLRGPKNCREAVRHFGKAPGVPHSHTKPYVRSKGRKFEKARGRRNSRGFRN

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	`TkA05G003310`
TK1151 ID	TkA05G003310
OH-1004 ID	LXL04_018900
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	TK1151 / GWHBCHF00000000

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA05G003310

Location Chr05:990270-991539 (+)

Description Similar to RPL18C: 60S ribosomal protein L18-3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g27850`	Large ribosomal subunit protein eL18x.	No verified direct reference in this release
`At3g05590`	Large ribosomal subunit protein eL18y.	No verified direct reference in this release
`At2g47570`	Large ribosomal subunit protein eL18z.	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_018900 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

GO annotations (OH1004 source)

GO:0006412 translation Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005773 vacuole Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009536 plastid Cellular Component

GO:0015934 large ribosomal subunit Cellular Component

GO:0022625 cytosolic large ribosomal subunit Cellular Component

GO:0022626 cytosolic ribosome Cellular Component

GO:0003723 RNA binding Molecular Function

KEGG gene cross-reference

ath:AT2G47570

ath:AT3G05590

ath:AT5G27850

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.

Cytoplasm0.905

Rank 1 · TkA05G003310 · TK1151

Nucleus0.176

Rank 2 · TkA05G003310 · TK1151

Endoplasmic reticulum0.112

Rank 3 · TkA05G003310 · TK1151

Mitochondrion0.017

Rank 4 · TkA05G003310 · TK1151

Cell membrane0.016

Rank 5 · TkA05G003310 · TK1151

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.

PF17135Ribosomal_L182-186 aa

PF00828Ribosomal_L27A76-119 aa

PF22722NA-iREase189-125 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA05G003310	`PF17135`	Ribosomal_L18	2	186	2.6e-94	314.7
TkA05G003310	`PF00828`	Ribosomal_L27A	76	119	2e-05	25.6
TkA05G003310	`PF22722`	NA-iREase1	89	125	0.079	13.7

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
`Q940B0`	Arabidopsis thaliana	sp\|Q940B0\|RL183_ARATH Large ribosomal subunit protein eL18x	87.000%	Swiss-Prot	High
`P42791`	Arabidopsis thaliana	sp\|P42791\|RL182_ARATH Large ribosomal subunit protein eL18y	85.400%	Swiss-Prot	High
`O22254`	Arabidopsis thaliana	sp\|O22254\|RL181_ARATH Large ribosomal subunit protein eL18z	79.000%	Swiss-Prot	High

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