LXL04_025504 | RubberDandelionOmics

Gene overview

LXL04_025504

Reference: OH-1004 Chr: Chr05 Coordinates: 112632446-112635116 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

858 bp · LXL04_025504|LXL04_025504|OH1004|cDNA

ATGTCCTATGACAATGGCAACATAACCACTCTGGATGTTAGATGGTTAGGCATTAGGTCATCCGACTTCGACAAACATAAGATACCGAATGAGGTTCGAGTCCAAATGACACCGCAAGAAATCAAGGTGCTTGATAGATTGTTGGAAGAAGAATTTGTGATTTGTAAGCCTCAATGGTTTGAAGAGTTGACCAGAATGAATGAGACAAAACAAAAGGTTGAAATTCAGGCTTTGAATTGTTTTGGGATGGACTATCTTGC...

CDS

Download CDS FASTA

858 bp · LXL04_025504|LXL04_025504|OH1004|CDS

ATGTCCTATGACAATGGCAACATAACCACTCTGGATGTTAGATGGTTAGGCATTAGGTCATCCGACTTCGACAAACATAAGATACCGAATGAGGTTCGAGTCCAAATGACACCGCAAGAAATCAAGGTGCTTGATAGATTGTTGGAAGAAGAATTTGTGATTTGTAAGCCTCAATGGTTTGAAGAGTTGACCAGAATGAATGAGACAAAACAAAAGGTTGAAATTCAGGCTTTGAATTGTTTTGGGATGGACTATCTTGC...

Protein

Download Protein FASTA

285 aa · LXL04_025504|LXL04_025504|OH1004|PROTEIN

MSYDNGNITTLDVRWLGIRSSDFDKHKIPNEVRVQMTPQEIKVLDRLLEEEFVICKPQWFEELTRMNETKQKVEIQALNCFGMDYLANVYLPRKLQTEDWIRGVVRLPLSSAMAIEFEEYIVIISTLDGSQSINGKTGKFEPVGDLMHDTCYEEDFSSNISKIFPNRSRLYRKLRSSNCLRTRSGTKMPYMTGFCGKVRGQDYYFKILFCAKFKCTYTKEYDQILLKEKFITCSLDSDSTNSKALITYSVLSIITTAVEE...

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_025504`
TK1151 ID	TkA06G056200
OH-1004 ID	LXL04_025504
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	96.000
Protein coverage (%)	TK1151 100.000 / OH-1004 35.439 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_025504

Location Chr05:112632446-112635116 (-)

Description Similar to TOP6A: DNA topoisomerase 6 subunit A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g02820`	Component of the DNA topoisomerase VI involved in chromatin organization and progression of endoreduplication cycles.	A crucial role for the putative Arabidopsis topoisomerase VI in plant growth and development.2002 · DOI: 10.1073/pnas.152337599 DNA topoisomerase VI is essential for endoreduplication in Arabidopsis.2002 · DOI: 10.1016/s0960-9822(02)01198-3

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0284800`	Component of the DNA topoisomerase VI involved in chromatin organization and progression of endoreduplication cycles.	No verified direct reference in this release
`UniProt: A2XFC1`	Component of the DNA topoisomerase VI involved in chromatin organization and progression of endoreduplication cycles.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_025504 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000706 meiotic DNA double-strand break processing Biological Process

GO:0006265 DNA topological change Biological Process

GO:0007129 homologous chromosome pairing at meiosis Biological Process

GO:0007130 synaptonemal complex assembly Biological Process

GO:0007131 reciprocal meiotic recombination Biological Process

GO:0007141 male meiosis I Biological Process

GO:0007283 spermatogenesis Biological Process

GO:0007286 spermatid development Biological Process

GO:0007292 female gamete generation Biological Process

GO:0034502 protein localization to chromosome Biological Process

GO:0042138 meiotic DNA double-strand break formation Biological Process

GO:0045141 meiotic telomere clustering Biological Process

KEGG gene cross-reference

ath:AT5G02820

dosa:Os03g0284800

hsa:23626

mmu:26972

osa:4332468

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.

Nucleus0.490

Rank 1 · LXL04_025504 · OH-1004

Cytoplasm0.417

Rank 2 · LXL04_025504 · OH-1004

Mitochondrion0.104

Rank 3 · LXL04_025504 · OH-1004

Cell membrane0.061

Rank 4 · LXL04_025504 · OH-1004

Endoplasmic reticulum0.041

Rank 5 · LXL04_025504 · 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.

PF21180.4TOP6A-Spo11_Toprim1-95 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025504	`PF21180.4`	TOP6A-Spo11_Toprim	1	95	2.7e-19	70.5

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
`Q9LZ03`	Arabidopsis thaliana	DNA topoisomerase 6 subunit A	58.416%	Swiss-Prot	weak database homology
`Q0DSV9`	Oryza sativa subsp. japonica	Topoisomerase 6 subunit A3	54.455%	Swiss-Prot	weak database homology
`A2XFC1`	Oryza sativa subsp. indica	DNA topoisomerase 6 subunit A3	54.455%	Swiss-Prot	weak database homology

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