LXL04_039275 | RubberDandelionOmics

Gene overview

LXL04_039275

Reference: OH-1004 Chr: Chr09 Coordinates: 64367636-64371657 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1641 bp · LXL04_039275|LXL04_039275|OH1004|cDNA

ATGGACTGCTGGATTAGGGTAGATCTTGCCAATGATCTCCAAGAGTATTTGCTTAAGATCTGCTCCGGTGAGATTACTGGCGGTGAAGATGATAGTCACCTATCTGTGAATTTTGCCGAAGTAATCAAAGCCATACATGGACCTGATGGTGGCTTCAATGCACCCTCCAGAACCAAAAGGAGAAGCCCATGCTGGGGAAACATTGTTGATTTATCGAAACCTCTCCTCAAGCATGGGATTGATTTAAACAACTTATTCTC...

CDS

Download CDS FASTA

1641 bp · LXL04_039275|LXL04_039275|OH1004|CDS

ATGGACTGCTGGATTAGGGTAGATCTTGCCAATGATCTCCAAGAGTATTTGCTTAAGATCTGCTCCGGTGAGATTACTGGCGGTGAAGATGATAGTCACCTATCTGTGAATTTTGCCGAAGTAATCAAAGCCATACATGGACCTGATGGTGGCTTCAATGCACCCTCCAGAACCAAAAGGAGAAGCCCATGCTGGGGAAACATTGTTGATTTATCGAAACCTCTCCTCAAGCATGGGATTGATTTAAACAACTTATTCTC...

Protein

Download Protein FASTA

546 aa · LXL04_039275|LXL04_039275|OH1004|PROTEIN

MDCWIRVDLANDLQEYLLKICSGEITGGEDDSHLSVNFAEVIKAIHGPDGGFNAPSRTKRRSPCWGNIVDLSKPLLKHGIDLNNLFSESQGCIVWNLESSGIFTVGSLRRHIDESSLASEIKEWNWHKLLPRKVNILTWRLAHGWLPTKVNLTKRGIRTNESCVLCHTGTETENHLFAECPVAVEVWSGLRLWWNKLSPLLIDNSDMTKWSKEPNGDKENLQAAVILTYIWVLWSHRNKKTHTNSLESHKGLANEIQSLS...

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_039275`
TK1151 ID	TkA04G518560
OH-1004 ID	LXL04_039275
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	95.600
Protein coverage (%)	TK1151 81.081 / OH-1004 32.967 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_039275

Location Chr09:64367636-64371657 (-)

Description Similar to CAPH2: Condensin-2 complex subunit H2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g16730`	Regulatory subunit of the condensin-2 complex, a complex that seems to provide chromosomes with an additional level of organization and rigidity and in establishing mitotic chromosome architecture (By similarity).	Condensin II alleviates DNA damage and is essential for tolerance of boron overload stress in Arabidopsis.2011 · DOI: 10.1105/tpc.111.086314

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_039275 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006974 DNA damage response Biological Process

GO:0010032 meiotic chromosome condensation Biological Process

GO:0045739 positive regulation of DNA repair Biological Process

GO:0051306 mitotic sister chromatid separation Biological Process

GO:0000793 condensed chromosome Cellular Component

GO:0000796 condensin complex Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0003682 chromatin binding Molecular Function

KEGG gene cross-reference

ath:AT3G16730

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.

Cytoplasm0.421

Rank 1 · LXL04_039275 · OH-1004

Nucleus0.395

Rank 2 · LXL04_039275 · OH-1004

Cell membrane0.228

Rank 3 · LXL04_039275 · OH-1004

Endoplasmic reticulum0.068

Rank 4 · LXL04_039275 · OH-1004

Golgi apparatus0.056

Rank 5 · LXL04_039275 · 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.

PF06278.17CNDH2_N6-42 aa

PF13966.12zf-RVT103-187 aa

PF06278.17CNDH2_N331-368 aa

PF16869.11CNDH2_M427-522 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_039275	`PF06278.17`	CNDH2_N	6	42	1.7e-19	70.7
LXL04_039275	`PF13966.12`	zf-RVT	103	187	3.7e-18	66.7
LXL04_039275	`PF06278.17`	CNDH2_N	331	368	1.7e-19	70.7
LXL04_039275	`PF16869.11`	CNDH2_M	427	522	2.4e-23	84.1

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
`Q9LUR0`	Arabidopsis thaliana	Condensin-2 complex subunit H2	48.333%	Swiss-Prot	weak database homology

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