LXL04_026737 | RubberDandelionOmics

Gene overview

LXL04_026737

Reference: OH-1004 Chr: Chr06 Coordinates: 2174179-2178053 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1182 bp · LXL04_026737|LXL04_026737|OH1004|cDNA

ATGTCCGTCTTCAGTCAATTCGCCACTGCAACCAAGCTTATGCAGCCACACTTTGAACAAGCACTAGAGAAATTAATCCCCCATGTCACCTGCATCGTTTCCGATGGGTTTCTGAGTTGGACTCTTGAATCGGCGAATAAGTTTGGAATCCATCGCCTCTTCTATTTTGGCATGAGCGGCTACTCCACCGCCATAAGTCAACAAGTGGCTCTAAACCGGCTTTTATCAGGACCTGAGCCCGATGACGACTTAATCACAGT...

CDS

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1182 bp · LXL04_026737|LXL04_026737|OH1004|CDS

ATGTCCGTCTTCAGTCAATTCGCCACTGCAACCAAGCTTATGCAGCCACACTTTGAACAAGCACTAGAGAAATTAATCCCCCATGTCACCTGCATCGTTTCCGATGGGTTTCTGAGTTGGACTCTTGAATCGGCGAATAAGTTTGGAATCCATCGCCTCTTCTATTTTGGCATGAGCGGCTACTCCACCGCCATAAGTCAACAAGTGGCTCTAAACCGGCTTTTATCAGGACCTGAGCCCGATGACGACTTAATCACAGT...

Protein

Download Protein FASTA

393 aa · LXL04_026737|LXL04_026737|OH1004|PROTEIN

MSVFSQFATATKLMQPHFEQALEKLIPHVTCIVSDGFLSWTLESANKFGIHRLFYFGMSGYSTAISQQVALNRLLSGPEPDDDLITVTRLNLHSIRFSRRDIIETVGSDIKGFGIIPSEFLVGGGDASLNSQLFPCLNSSVKEGCSISSTTKLNDLMEEFLESSMKNNGDCSHAIGTVQRKPGRGDATLSVSCSDKISRWNVVGVQGALLSHFLQPVYISSITVGQSRNCSDKQVEEQLTRALSDRVLPLSKKLTSPFKV...

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_026737`
TK1151 ID	TkA07G004810
OH-1004 ID	LXL04_026737
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	100.000
Protein coverage (%)	TK1151 65.610 / OH-1004 68.448 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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_026737

Location Chr06:2174179-2178053 (+)

Description Similar to TAD1: tRNA-specific adenosine deaminase TAD1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g01760`	Involved in RNA editing.	Importance of adenosine-to-inosine editing adjacent to the anticodon in an Arabidopsis alanine tRNA under environmental stress.2013 · DOI: 10.1093/nar/gkt013

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_026737 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006382 adenosine to inosine editing Biological Process

GO:0006396 RNA processing Biological Process

GO:0006400 tRNA modification Biological Process

GO:0008033 tRNA processing Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0003723 RNA binding Molecular Function

GO:0003725 double-stranded RNA binding Molecular Function

GO:0003726 double-stranded RNA adenosine deaminase activity Molecular Function

GO:0008251 tRNA-specific adenosine deaminase activity Molecular Function

KEGG gene cross-reference

ath:AT1G01760

gga:415886

mmu:30947

xtr:733776

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.

Cytoplasm0.413

Rank 1 · LXL04_026737 · OH-1004

Nucleus0.358

Rank 2 · LXL04_026737 · OH-1004

Cell membrane0.103

Rank 3 · LXL04_026737 · OH-1004

Mitochondrion0.100

Rank 4 · LXL04_026737 · OH-1004

Endoplasmic reticulum0.092

Rank 5 · LXL04_026737 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF02137.25A_deamin159-382 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026737	`PF02137.25`	A_deamin	159	382	5.5e-52	178.0

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
`F4HU58`	Arabidopsis thaliana	tRNA-specific adenosine deaminase TAD1	57.333%	Swiss-Prot	moderate database homology

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