LXL04_022723 | RubberDandelionOmics

Gene overview

LXL04_022723

Reference: OH-1004 Chr: Chr05 Coordinates: 6837004-6838372 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

954 bp · LXL04_022723|LXL04_022723|OH1004|cDNA

ATGGAGGAGTCAGCACAGAGAAAAGAAAGACTAAAAGCCATGAGAATGGAAGCTTCACAGGAGGGCCCCACGTATAACGAAGGTGGTGACCATTTAGCAGTTAGCCTCTCGAACCCACTTCTTGAACCCACGGCTAACCCCAGTGGTCAGGTGCACCAAGTGGCTCAGAGCTTTAACTATTACACCAACCCAATGGCAGCATACTCTGGGAACAAACAGAAGACCAAGGTCAGCCCTCAGATACCACACGACTATTCATC...

CDS

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954 bp · LXL04_022723|LXL04_022723|OH1004|CDS

ATGGAGGAGTCAGCACAGAGAAAAGAAAGACTAAAAGCCATGAGAATGGAAGCTTCACAGGAGGGCCCCACGTATAACGAAGGTGGTGACCATTTAGCAGTTAGCCTCTCGAACCCACTTCTTGAACCCACGGCTAACCCCAGTGGTCAGGTGCACCAAGTGGCTCAGAGCTTTAACTATTACACCAACCCAATGGCAGCATACTCTGGGAACAAACAGAAGACCAAGGTCAGCCCTCAGATACCACACGACTATTCATC...

Protein

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317 aa · LXL04_022723|LXL04_022723|OH1004|PROTEIN

MEESAQRKERLKAMRMEASQEGPTYNEGGDHLAVSLSNPLLEPTANPSGQVHQVAQSFNYYTNPMAAYSGNKQKTKVSPQIPHDYSSILPRQQTNDMFPSPSLQPHLSHSPIPRMHMPHGQYQNPNFSYTPQVQGGHPSPGGYRGPHFTTGPGQGNYPSPGPGYPLPGPSLGRGYGYRGPGPNHFRPGPNHGPGYSTPGPNQGRGQWLGNSRGRGTWSGQGQGRGGGRGAHNNNNHVTAEDRPDLFYNKSMVEDPWKFLE...

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_022723`
TK1151 ID	TkA06G458060
OH-1004 ID	LXL04_022723
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
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

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Basic Information and Functional Annotation

Gene ID LXL04_022723

Location Chr05:6837004-6838372 (-)

Description Protein of unknown function

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g24500`	Involved in miRNAs and siRNAs biogenesis and thus promotes gene silencing.	ROTUNDA3 function in plant development by phosphatase 2A-mediated regulation of auxin transporter recycling.2016 · DOI: 10.1073/pnas.1501343112

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_022723 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000380 alternative mRNA splicing, via spliceosome Biological Process

GO:0000381 regulation of alternative mRNA splicing, via spliceosome Biological Process

GO:0000398 mRNA splicing, via spliceosome Biological Process

GO:0007623 circadian rhythm Biological Process

GO:0009409 response to cold Biological Process

GO:0009649 entrainment of circadian clock Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0030422 siRNA processing Biological Process

GO:0035196 miRNA processing Biological Process

GO:1901703 protein localization involved in auxin polar transport Biological Process

GO:2000012 regulation of auxin polar transport Biological Process

KEGG gene cross-reference

ath:AT4G24500

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.

Nucleus0.825

Rank 1 · LXL04_022723 · OH-1004

Cytoplasm0.319

Rank 2 · LXL04_022723 · OH-1004

Cell membrane0.030

Rank 3 · LXL04_022723 · OH-1004

Endoplasmic reticulum0.029

Rank 4 · LXL04_022723 · OH-1004

Mitochondrion0.023

Rank 5 · LXL04_022723 · 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.

PF15502.12MPLKIP226-270 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022723	`PF15502.12`	MPLKIP	226	270	2.5e-07	31.5

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9SB47`	Arabidopsis thaliana	Protein SICKLE	38.272%	Swiss-Prot	weak database homology

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