LXL04_013709 | RubberDandelionOmics

Gene overview

LXL04_013709

Reference: OH-1004 Chr: Chr03 Coordinates: 34501326-34508672 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2475 bp · LXL04_013709|LXL04_013709|OH1004|cDNA

ATGGCCAAAATGCAACACACCAAAGTAGAGCTTGATCGCAGGTTCAGCATCAAAGACCTTGGAGATCTTAAGTATTTCCTTGGTATAGAGGTCGCTCGTACCTCGGAAGGGTTGGTGCTAAGTCAACGAAAATACACCTTGGACATTCTTTCCGATTGTGGTCTCGAAGGGTGCCGACCAAGCTCTTTCCCGATGGAGCAAAACCATCAGTTGGATAAAAGCGAAAACGAACCGAAAGTTGATGCAAGCCGCTACCGACG...

CDS

Download CDS FASTA

2475 bp · LXL04_013709|LXL04_013709|OH1004|CDS

ATGGCCAAAATGCAACACACCAAAGTAGAGCTTGATCGCAGGTTCAGCATCAAAGACCTTGGAGATCTTAAGTATTTCCTTGGTATAGAGGTCGCTCGTACCTCGGAAGGGTTGGTGCTAAGTCAACGAAAATACACCTTGGACATTCTTTCCGATTGTGGTCTCGAAGGGTGCCGACCAAGCTCTTTCCCGATGGAGCAAAACCATCAGTTGGATAAAAGCGAAAACGAACCGAAAGTTGATGCAAGCCGCTACCGACG...

Protein

Download Protein FASTA

824 aa · LXL04_013709|LXL04_013709|OH1004|PROTEIN

MAKMQHTKVELDRRFSIKDLGDLKYFLGIEVARTSEGLVLSQRKYTLDILSDCGLEGCRPSSFPMEQNHQLDKSENEPKVDASRYRRIVGRLLYLQATRPDITYSVNILSQFVADPRQPHMDAVHRILRYLKTTPGQGVLLPRTGGFNLTAYCDSDWLGCPYTRRSRTGYVLLLGGAPISWKTKKQSVVSRSSVEAEYRSMASTVSEILWVRWLLQELNIASASPTPLFCNNEAACHIANNPVFHERTKHVEMDCYFVRE...

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_013709`
TK1151 ID	TkA02G476990
OH-1004 ID	LXL04_013709
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	90.400
Protein coverage (%)	TK1151 88.110 / OH-1004 49.029 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_013709

Location Chr03:34501326-34508672 (-)

Description Similar to RE1: Retrovirus-related Pol polyprotein from transposon RE1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`UniProt: Q94HW2`	Retrovirus-related Pol polyprotein from transposon RE1.	No verified direct reference in this release
`At4g02960`	Retrovirus-related Pol polyprotein from transposon RE2.	No verified direct reference in this release
`At5g64940`	May participate in responses to oxidative stress, high light and heavy metals.	Loss of the Atypical Kinases ABC1K7 and ABC1K8 Changes the Lipid Composition of the Chloroplast Membrane.2015 · DOI: 10.1093/pcp/pcv046
`UniProt: P92519`	Uncharacterized mitochondrial protein AtMg00810.	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_013709 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006281 DNA repair Biological Process

GO:0006310 DNA recombination Biological Process

GO:0006508 proteolysis Biological Process

GO:0006979 response to oxidative stress Biological Process

GO:0007623 circadian rhythm Biological Process

GO:0009644 response to high light intensity Biological Process

GO:0010150 leaf senescence Biological Process

GO:0015074 DNA integration Biological Process

GO:0034599 cellular response to oxidative stress Biological Process

GO:0042542 response to hydrogen peroxide Biological Process

GO:0046467 membrane lipid biosynthetic process Biological Process

GO:0046686 response to cadmium ion Biological Process

KEGG gene cross-reference

ath:AT5G64940

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.

Cytoplasm0.231

Rank 1 · LXL04_013709 · OH-1004

Plastid0.224

Rank 2 · LXL04_013709 · OH-1004

Mitochondrion0.212

Rank 3 · LXL04_013709 · OH-1004

Peroxisome0.124

Rank 4 · LXL04_013709 · OH-1004

Endoplasmic reticulum0.120

Rank 5 · LXL04_013709 · 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.

PF07727.20RVT_23-66 aa

PF03109.23ABC1505-633 aa

PF09733.15VEFS-Box631-686 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_013709	`PF07727.20`	RVT_2	3	66	4.9e-09	36.9
LXL04_013709	`PF03109.23`	ABC1	505	633	2.7e-21	76.5
LXL04_013709	`PF09733.15`	VEFS-Box	631	686	7.2e-14	52.6

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
`Q94HW2`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE1	43.243%	Swiss-Prot	weak database homology
`Q9ZT94`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE2	42.905%	Swiss-Prot	weak database homology
`Q93Y08`	Arabidopsis thaliana	Protein ACTIVITY OF BC1 COMPLEX KINASE 8, chloroplastic	68.627%	Swiss-Prot	weak database homology
`P92519`	Arabidopsis thaliana	Uncharacterized mitochondrial protein AtMg00810	45.545%	Swiss-Prot	weak database homology

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