LXL04_000197 | RubberDandelionOmics

Gene overview

LXL04_000197

Reference: OH-1004 Chr: Chr01 Coordinates: 3893560-3898503 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2214 bp · LXL04_000197|LXL04_000197|OH1004|cDNA

ATGGCTTTTCTTAAACCTCATCATTCAACAACATATTACAATTCACTACGGTTAATCATGTCCTCAAGGTTCTGGCTATCAACTCATGGCATATCTGTCTGCTCTATCCGTCCTTCTCCACCCTCTATCCTCCTAAAACCCAGGTCAAATTTGGGAGTGAGAACTCTATCAACCAATAGGGGTTTGGTTCCAAGTGCTTTGGTACGTCCAAGAGCTTTTATGTCGACGTCTTCTTCATCAAGCTCTGCTACTGAAGTTCG...

CDS

Download CDS FASTA

2214 bp · LXL04_000197|LXL04_000197|OH1004|CDS

ATGGCTTTTCTTAAACCTCATCATTCAACAACATATTACAATTCACTACGGTTAATCATGTCCTCAAGGTTCTGGCTATCAACTCATGGCATATCTGTCTGCTCTATCCGTCCTTCTCCACCCTCTATCCTCCTAAAACCCAGGTCAAATTTGGGAGTGAGAACTCTATCAACCAATAGGGGTTTGGTTCCAAGTGCTTTGGTACGTCCAAGAGCTTTTATGTCGACGTCTTCTTCATCAAGCTCTGCTACTGAAGTTCG...

Protein

Download Protein FASTA

737 aa · LXL04_000197|LXL04_000197|OH1004|PROTEIN

MAFLKPHHSTTYYNSLRLIMSSRFWLSTHGISVCSIRPSPPSILLKPRSNLGVRTLSTNRGLVPSALVRPRAFMSTSSSSSSATEVRKEKDGSEHYGSENIQILEGLDAVRKRPGMYIGSTGFRGLHHLVYEILDNCVDEAQAGFASKVDIVLLEDGSVCITDNGRGIPIDLHPGSKKSGVETVLTVLHAGGKFGGASSGYKVSGGLHGVGLSVVNALSETLEVTVWRDGKECKQSYVRGKPLAPLSCEDLSPEAKDRTG...

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_000197`
TK1151 ID	TkA01G627840
OH-1004 ID	LXL04_000197
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.200
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	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_000197

Location Chr01:3893560-3898503 (-)

Description Similar to GYRB: DNA gyrase subunit B, chloroplastic/mitochondrial

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g04130`	A type II topoisomerase that negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner.	No verified direct reference in this release
`At3g10270`	A type II topoisomerase that negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0268300`	A type II topoisomerase that negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_000197 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006261 DNA-templated DNA replication Biological Process

GO:0006265 DNA topological change Biological Process

GO:0005694 chromosome Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0042644 chloroplast nucleoid Cellular Component

GO:0003677 DNA binding Molecular Function

GO:0005524 ATP binding Molecular Function

GO:0034335 DNA negative supercoiling activity Molecular Function

GO:0046872 metal ion binding Molecular Function

KEGG gene cross-reference

ath:AT3G10270

ath:AT5G04130

dosa:Os01g0268300

tma:TM0833

tmi:THEMA_00475

tmm:Tmari_0835

tmw:THMA_0854

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.

Mitochondrion0.804

Rank 1 · LXL04_000197 · OH-1004

Plastid0.179

Rank 2 · LXL04_000197 · OH-1004

Cytoplasm0.077

Rank 3 · LXL04_000197 · OH-1004

Nucleus0.047

Rank 4 · LXL04_000197 · OH-1004

Peroxisome0.029

Rank 5 · LXL04_000197 · 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.

PF02518.32HATPase_c125-268 aa

PF00204.32DNA_gyraseB321-490 aa

PF01751.29Toprim519-620 aa

PF00986.27DNA_gyraseB_C663-724 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_000197	`PF02518.32`	HATPase_c	125	268	1.1e-15	58.7
LXL04_000197	`PF00204.32`	DNA_gyraseB	321	490	8.7e-56	188.9
LXL04_000197	`PF01751.29`	Toprim	519	620	1.6e-18	67.4
LXL04_000197	`PF00986.27`	DNA_gyraseB_C	663	724	2.9e-23	82.5

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
`Q94BZ7`	Arabidopsis thaliana	DNA gyrase subunit B, mitochondrial	76.061%	Swiss-Prot	strong database homology
`Q9SS38`	Arabidopsis thaliana	DNA gyrase subunit B, chloroplastic	69.783%	Swiss-Prot	strong database homology
`Q5NBJ3`	Oryza sativa subsp. japonica	DNA gyrase subunit B, chloroplastic/mitochondrial	72.985%	Swiss-Prot	strong database homology

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