LXL04_000413 | RubberDandelionOmics

Gene overview

LXL04_000413

Reference: OH-1004 Chr: Chr01 Coordinates: 7800075-7801872 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1239 bp · LXL04_000413|LXL04_000413|OH1004|cDNA

ATGGTCCGAAACGTGAAAGGCGAACCGAGTGGTAGTAGCAGTAAGGCTAACGGTGTTAGTCGGAAAAACAGGGGGGAGAGTGATCATAACGAAGGAGATGATCAAAACGAGGGGAATGGATTGGAGCGTAGGGTTCTTCGGTCTCGCTATCTTGCTGTTAAGAACCTAATAAGCGACAAGAGAGAAGAGATAACTAAGGCAGACTCGGAGAAATTCAGGACAATTTTTGATGAAGTCGAATGCCTGCATCAACAGGTTCA...

CDS

Download CDS FASTA

1239 bp · LXL04_000413|LXL04_000413|OH1004|CDS

ATGGTCCGAAACGTGAAAGGCGAACCGAGTGGTAGTAGCAGTAAGGCTAACGGTGTTAGTCGGAAAAACAGGGGGGAGAGTGATCATAACGAAGGAGATGATCAAAACGAGGGGAATGGATTGGAGCGTAGGGTTCTTCGGTCTCGCTATCTTGCTGTTAAGAACCTAATAAGCGACAAGAGAGAAGAGATAACTAAGGCAGACTCGGAGAAATTCAGGACAATTTTTGATGAAGTCGAATGCCTGCATCAACAGGTTCA...

Protein

Download Protein FASTA

412 aa · LXL04_000413|LXL04_000413|OH1004|PROTEIN

MVRNVKGEPSGSSSKANGVSRKNRGESDHNEGDDQNEGNGLERRVLRSRYLAVKNLISDKREEITKADSEKFRTIFDEVECLHQQVQKPREQVADAEALLDITNTLMTSVKAQTNEGVTASDFVSCLLKNFGEIGGGSNGDDEIRNSVRWKDIGIAVSHVFLKGDGCCTMLGPMNSEIKQRKVTVQRRQTKLTEKARPEEVKYSRDNLKCFTLMDHINTCAFCSILQLASSALEEKTDTDKNMSTMFDVLRKNRTVKLEA...

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_000413`
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_000413

Location Chr01:7800075-7801872 (+)

Description Similar to NSE4A: Non-structural maintenance of chromosomes element 4 homolog A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g51130`	Component of the SMC5-SMC6 complex, that promotes sister chromatid alignment after DNA damage and facilitates double-stranded DNA breaks (DSBs) repair via homologous recombination between sister chromatids.	No verified direct reference in this release
`At3g20760`	Component of the SMC5-SMC6 complex, that promotes sister chromatid alignment after DNA damage and facilitates double-stranded DNA breaks (DSBs) repair via homologous recombination between sister chromatids.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_000413 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000724 double-strand break repair via homologous recombination Biological Process

GO:0006281 DNA repair Biological Process

GO:0006310 DNA recombination Biological Process

GO:0006974 DNA damage response Biological Process

GO:0016925 protein sumoylation Biological Process

GO:0032204 regulation of telomere maintenance Biological Process

GO:0051321 meiotic cell cycle Biological Process

GO:0140588 chromatin looping Biological Process

GO:0000781 chromosome, telomeric region Cellular Component

GO:0000791 euchromatin Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

KEGG gene cross-reference

ath:AT1G51130

ath:AT3G20760

bta:527312

hsa:54780

spo:3361330

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.

Nucleus0.932

Rank 1 · LXL04_000413 · OH-1004

Cytoplasm0.133

Rank 2 · LXL04_000413 · OH-1004

Cell membrane0.024

Rank 3 · LXL04_000413 · OH-1004

Endoplasmic reticulum0.014

Rank 4 · LXL04_000413 · OH-1004

Plastid0.011

Rank 5 · LXL04_000413 · 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.

PF08743.16Nse4_C256-338 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_000413	`PF08743.16`	Nse4_C	256	338	1.1e-22	80.7

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
`Q9C689`	Arabidopsis thaliana	Non-structural maintenance of chromosomes element 4 homolog A	51.892%	Swiss-Prot	strong database homology
`F4JET1`	Arabidopsis thaliana	Non-structural maintenance of chromosomes element 4 homolog B	47.684%	Swiss-Prot	moderate database homology

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