LXL04_001855 | RubberDandelionOmics

Gene overview

LXL04_001855

Reference: OH-1004 Chr: Chr01 Coordinates: 35106689-35108849 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1683 bp · LXL04_001855|LXL04_001855|OH1004|cDNA

ATGCCTGCCGCCGCTGCACCACCGTCACCCGCCGAAACCCTCGACGAAACCACCAACCTACTATGTCAGCTTCTGCCGGCTTCTCTGTCCATCAACTGTTTTCCCGGCCGCTGGCAGGTATTGAGGTCTAAACTTGCCACTCTCAAGTCCCTTCTCTCTGAACTCTCATATTCCACTCACTGGTCCGAGAATCAACTCCTCCTCACGCTGCTACCCAACCTCCTATCCACCCTCCGCCGCATCCAGACCTTATGCGACCG...

CDS

Download CDS FASTA

1683 bp · LXL04_001855|LXL04_001855|OH1004|CDS

ATGCCTGCCGCCGCTGCACCACCGTCACCCGCCGAAACCCTCGACGAAACCACCAACCTACTATGTCAGCTTCTGCCGGCTTCTCTGTCCATCAACTGTTTTCCCGGCCGCTGGCAGGTATTGAGGTCTAAACTTGCCACTCTCAAGTCCCTTCTCTCTGAACTCTCATATTCCACTCACTGGTCCGAGAATCAACTCCTCCTCACGCTGCTACCCAACCTCCTATCCACCCTCCGCCGCATCCAGACCTTATGCGACCG...

Protein

Download Protein FASTA

560 aa · LXL04_001855|LXL04_001855|OH1004|PROTEIN

MPAAAAPPSPAETLDETTNLLCQLLPASLSINCFPGRWQVLRSKLATLKSLLSELSYSTHWSENQLLLTLLPNLLSTLRRIQTLCDRCTDSTYTAGKLLMQSDLDMAAGWLSKQLHDLDLLLRSGVLRQSNAIVLSQPAPGSAKEDLSLFVRDLFTRLQIGGVEFKRKALESLIQLLVEDEKAATLVAKEGNIGYLINLFDVHTHREQSVSAISILACASDQSRKTVFEEGGLGPLLRIVESGSLQLKEKASMAVEAITA...

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_001855`
TK1151 ID	TkA01G503560
OH-1004 ID	LXL04_001855
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	100.000
Protein coverage (%)	TK1151 78.779 / OH-1004 48.393 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_001855

Location Chr01:35106689-35108849 (+)

Description Similar to PUB4: U-box domain-containing protein 4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g23140`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_001855 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000011 vacuole inheritance Biological Process

GO:0000045 autophagosome assembly Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0034614 cellular response to reactive oxygen species Biological Process

GO:0048364 root development Biological Process

GO:0048658 anther wall tapetum development Biological Process

GO:0071562 nucleus-vacuole junction assembly Biological Process

GO:1904821 chloroplast disassembly Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0043495 protein-membrane adaptor activity Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

KEGG gene cross-reference

ago:AGOS_AEL048W

ath:AT2G23140

kla:KLLA0_A11286g

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.

Cytoplasm0.488

Rank 1 · LXL04_001855 · OH-1004

Nucleus0.432

Rank 2 · LXL04_001855 · OH-1004

Cell membrane0.172

Rank 3 · LXL04_001855 · OH-1004

Endoplasmic reticulum0.052

Rank 4 · LXL04_001855 · OH-1004

Lysosome / Vacuole0.039

Rank 5 · LXL04_001855 · 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.

PF23005.2DUF703217-126 aa

PF24768.2ARM_ARMC5177-380 aa

PF24768.2ARM_ARMC5331-490 aa

PF11841.15ELMO_ARM348-488 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_001855	`PF23005.2`	DUF7032	17	126	1.9e-33	115.4
LXL04_001855	`PF24768.2`	ARM_ARMC5	177	380	3.7e-16	60.1
LXL04_001855	`PF24768.2`	ARM_ARMC5	331	490	3.7e-16	60.1
LXL04_001855	`PF11841.15`	ELMO_ARM	348	488	1.2e-07	32.5

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
`O22193`	Arabidopsis thaliana	U-box domain-containing protein 4	25.243%	Swiss-Prot	weak database homology

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