LXL04_007187 | RubberDandelionOmics

Gene overview

LXL04_007187

Reference: OH-1004 Chr: Chr02 Coordinates: 38485558-38490323 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2796 bp · LXL04_007187|LXL04_007187|OH1004|cDNA

ATGCTTCCAACCTGTCATATGAAAAGAAAAGATCCCACGGGTTGGATTGTAATAAATTGGGTGAAAATTGACGAACTAGATCATCAACTACATCCACTCTATTACATTCTTGATCCttataccGTCAAATACAATTCAAATAACAACTCACCGGCTAACCCTAATCACAAATCCCGAATCCAAATCTCAAATGGCGAAAATTTCTTCACACCTTCACCTCTTCACAGATCCGGAGATCCCGGCCTAATCACGTCTTCCCG...

CDS

Download CDS FASTA

2796 bp · LXL04_007187|LXL04_007187|OH1004|CDS

ATGCTTCCAACCTGTCATATGAAAAGAAAAGATCCCACGGGTTGGATTGTAATAAATTGGGTGAAAATTGACGAACTAGATCATCAACTACATCCACTCTATTACATTCTTGATCCTTATACCGTCAAATACAATTCAAATAACAACTCACCGGCTAACCCTAATCACAAATCCCGAATCCAAATCTCAAATGGCGAAAATTTCTTCACACCTTCACCTCTTCACAGATCCGGAGATCCCGGCCTAATCACGTCTTCCCG...

Protein

Download Protein FASTA

931 aa · LXL04_007187|LXL04_007187|OH1004|PROTEIN

MLPTCHMKRKDPTGWIVINWVKIDELDHQLHPLYYILDPYTVKYNSNNNSPANPNHKSRIQISNGENFFTPSPLHRSGDPGLITSSRRFFPSSTLNHFTSSHFTEESHPNRRLPVAEARINTISRLPVAEARIDATCDCDYDLRLRLLHPPFLQPVQATTIASSHSEFMDSNTPMDDVNNANRDDDDDDDDGDCVEIDDVGAGQLKKTGKRKREKKQTSPVWNVFELLKTKDANGVEVDVVINGKRRAKCKWCGEIKNYD...

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_007187`
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_007187

Location Chr02:38485558-38490323 (+)

Description Similar to Os03g0733400: Zinc finger BED domain-containing protein RICESLEEPER 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

No hit for this species in the current source table.

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0733400`	Transposase-like protein that is essential for plant growth and development.	No verified direct reference in this release
`Os05g0239150`	Transposase-like protein that is essential for plant growth and development.	No verified direct reference in this release
`Os05g0583200`	Transposase-like protein that is essential for plant growth and development.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_007187 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006310 DNA recombination Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0009791 post-embryonic development Biological Process

GO:0032196 transposition Biological Process

GO:0005634 nucleus Cellular Component

GO:0003677 DNA binding Molecular Function

GO:0008270 zinc ion binding Molecular Function

GO:0046983 protein dimerization activity Molecular Function

KEGG gene cross-reference

dosa:Os03g0733400

dosa:Os05g0239150

dosa:Os05g0583200

osa:4339741

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.

Nucleus0.868

Rank 1 · LXL04_007187 · OH-1004

Cytoplasm0.191

Rank 2 · LXL04_007187 · OH-1004

Mitochondrion0.022

Rank 3 · LXL04_007187 · OH-1004

Cell membrane0.021

Rank 4 · LXL04_007187 · OH-1004

Endoplasmic reticulum0.020

Rank 5 · LXL04_007187 · 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.

PF27041.1ZBED1_RNase-like378-474 aa

PF27039.1ZBED1_RNase-like_helical477-586 aa

PF14372.13hAT-like_RNase-H607-697 aa

PF05699.20Dimer_Tnp_hAT752-834 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_007187	`PF27041.1`	ZBED1_RNase-like	378	474	9.5e-31	106.5
LXL04_007187	`PF27039.1`	ZBED1_RNase-like_helical	477	586	1.2e-34	119.4
LXL04_007187	`PF14372.13`	hAT-like_RNase-H	607	697	1.7e-17	64.1
LXL04_007187	`PF05699.20`	Dimer_Tnp_hAT	752	834	8.6e-29	99.9

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
`Q6AVI0`	Oryza sativa subsp. japonica	Zinc finger BED domain-containing protein RICESLEEPER 2	31.276%	Swiss-Prot	moderate database homology
`B9FJG3`	Oryza sativa subsp. japonica	Zinc finger BED domain-containing protein RICESLEEPER 1	30.769%	Swiss-Prot	moderate database homology
`Q75HY5`	Oryza sativa subsp. japonica	Zinc finger BED domain-containing protein RICESLEEPER 3	29.685%	Swiss-Prot	weak database homology

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