LXL04_004941 | RubberDandelionOmics

Gene overview

LXL04_004941

Reference: OH-1004 Chr: Chr01 Coordinates: 150648570-150649835 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1266 bp · LXL04_004941|LXL04_004941|OH1004|cDNA

ATGGCGGATAAGAAAAAACGCCGACGACCAGACGCCGATTCCGATGACGAATCTGCTCGCCTCCCTTTCAAAAACCGTCTCAAACCAGACGCCGCCATCCTATCAATACTCAAAACCCTAACCGAAGCCACCAAGTCAGCTTCAACTTCTAAAACCCTAACCCTCTCCGATCTCAACCTCGCTTCCGCTTGCCGTGAAGTCACCGACTTAACCTTATCCTCTGTCCAAACCGAGATCCAAACACTAGCCATCTCTCTCGC...

CDS

Download CDS FASTA

1266 bp · LXL04_004941|LXL04_004941|OH1004|CDS

ATGGCGGATAAGAAAAAACGCCGACGACCAGACGCCGATTCCGATGACGAATCTGCTCGCCTCCCTTTCAAAAACCGTCTCAAACCAGACGCCGCCATCCTATCAATACTCAAAACCCTAACCGAAGCCACCAAGTCAGCTTCAACTTCTAAAACCCTAACCCTCTCCGATCTCAACCTCGCTTCCGCTTGCCGTGAAGTCACCGACTTAACCTTATCCTCTGTCCAAACCGAGATCCAAACACTAGCCATCTCTCTCGC...

Protein

Download Protein FASTA

421 aa · LXL04_004941|LXL04_004941|OH1004|PROTEIN

MADKKKRRRPDADSDDESARLPFKNRLKPDAAILSILKTLTEATKSASTSKTLTLSDLNLASACREVTDLTLSSVQTEIQTLAISLAKSILAGNGFSFSVPSRAATNQLYVPELDRIVLKDKTSVRPYASVSTVRKTTITARILSLIHQLSLKNIHVTKRDLFYTDVKLFQDQTQSDAVLDDVSCILGCTRSSLNVVAAEKGVVVGRLIFSDNGDMIDCTKMGMGGKAIPPNIDRVGDMSSDALFILLVEKDAAYMRLAE...

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_004941`
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_004941

Location Chr01:150648570-150649835 (+)

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

View annotation sources

Functional annotation source: OH1004 · LXL04_004941 · 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.

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.

Nucleus0.675

Rank 1 · LXL04_004941 · OH-1004

Cytoplasm0.242

Rank 2 · LXL04_004941 · OH-1004

Cell membrane0.048

Rank 3 · LXL04_004941 · OH-1004

Plastid0.046

Rank 4 · LXL04_004941 · OH-1004

Mitochondrion0.043

Rank 5 · LXL04_004941 · 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.

PF04406.20TP6A_N135-196 aa

PF21180.4TOP6A-Spo11_Toprim245-415 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_004941	`PF04406.20`	TP6A_N	135	196	1.2e-21	76.9
LXL04_004941	`PF21180.4`	TOP6A-Spo11_Toprim	245	415	4e-68	229.4

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
`Q9LZ03`	Arabidopsis thaliana	DNA topoisomerase 6 subunit A	84.300%	Swiss-Prot	strong database homology
`Q0DSV9`	Oryza sativa subsp. japonica	Topoisomerase 6 subunit A3	69.014%	Swiss-Prot	strong database homology
`A2XFC1`	Oryza sativa subsp. indica	DNA topoisomerase 6 subunit A3	69.014%	Swiss-Prot	strong database homology

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