LXL04_031964 | RubberDandelionOmics

Gene overview

LXL04_031964

Reference: OH-1004 Chr: Chr07 Coordinates: 13941555-13943213 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1659 bp · LXL04_031964|LXL04_031964|OH1004|cDNA

ATGAAGCTGCCGGAGAATGAAGACGACGCCGTTGAGGCTGAAACTCTCCAGGCTCTTGAATCGCTACTCGATTCCATACACAACACTCAATCTTTCAAAGGAAAATGGTCGCTCATGGAAACTAAACTTTTCGATCTCAAAACCCAACTCTCTGAGCTCTCTCACTTCCCACCGAACTCTCTCTCCGTCGACCTCCTCCGCTCTCTCTCCCGAACTCTCTCCGATGCTCTGAGTATCTCGCTTACCTGCCACAGCCCGAA...

CDS

Download CDS FASTA

1659 bp · LXL04_031964|LXL04_031964|OH1004|CDS

ATGAAGCTGCCGGAGAATGAAGACGACGCCGTTGAGGCTGAAACTCTCCAGGCTCTTGAATCGCTACTCGATTCCATACACAACACTCAATCTTTCAAAGGAAAATGGTCGCTCATGGAAACTAAACTTTTCGATCTCAAAACCCAACTCTCTGAGCTCTCTCACTTCCCACCGAACTCTCTCTCCGTCGACCTCCTCCGCTCTCTCTCCCGAACTCTCTCCGATGCTCTGAGTATCTCGCTTACCTGCCACAGCCCGAA...

Protein

Download Protein FASTA

552 aa · LXL04_031964|LXL04_031964|OH1004|PROTEIN

MKLPENEDDAVEAETLQALESLLDSIHNTQSFKGKWSLMETKLFDLKTQLSELSHFPPNSLSVDLLRSLSRTLSDALSISLTCHSPNLPGGKLKTQNEVDSVSAKLDNHIRDWEVLIKSGVLHDGVVSSLSVSKRETVRIEARNLVTLLQICSVDSRTLPLDSLLRLIEEDDKNVLIAVAQGVFPVLVRLLDSGSSAEIREKTVTAIARISTIDSSKHVLMAEGLLLLHYLILVLESGSGLAKEKACITLQALTLSKENA...

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_031964`
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_031964

Location Chr07:13941555-13943213 (-)

Description Similar to PUB10: U-box domain-containing protein 10

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g71020`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At2g23140`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At1g23030`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At3g46510`	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_031964 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000011 vacuole inheritance Biological Process

GO:0000045 autophagosome assembly Biological Process

GO:0007166 cell surface receptor signaling pathway Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0031648 protein destabilization Biological Process

GO:0034614 cellular response to reactive oxygen species Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0048364 root development Biological Process

GO:0048658 anther wall tapetum development Biological Process

GO:0050777 negative regulation of immune response Biological Process

GO:0051865 protein autoubiquitination Biological Process

GO:0071562 nucleus-vacuole junction assembly Biological Process

KEGG gene cross-reference

ago:AGOS_AEL048W

ath:AT1G23030

ath:AT1G71020

ath:AT2G23140

ath:AT3G46510

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Cytoplasm0.553

Rank 1 · LXL04_031964 · OH-1004

Nucleus0.325

Rank 2 · LXL04_031964 · OH-1004

Cell membrane0.178

Rank 3 · LXL04_031964 · OH-1004

Endoplasmic reticulum0.056

Rank 4 · LXL04_031964 · OH-1004

Golgi apparatus0.050

Rank 5 · LXL04_031964 · 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.

PF23005.2DUF703215-121 aa

PF24768.2ARM_ARMC5171-338 aa

PF24768.2ARM_ARMC5246-468 aa

PF24768.2ARM_ARMC5374-531 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_031964	`PF23005.2`	DUF7032	15	121	1.7e-32	112.3
LXL04_031964	`PF24768.2`	ARM_ARMC5	171	338	8.8e-19	68.7
LXL04_031964	`PF24768.2`	ARM_ARMC5	246	468	8.8e-19	68.7
LXL04_031964	`PF24768.2`	ARM_ARMC5	374	531	8.8e-19	68.7

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9C9A6`	Arabidopsis thaliana	U-box domain-containing protein 10	32.258%	Swiss-Prot	weak database homology
`O22193`	Arabidopsis thaliana	U-box domain-containing protein 4	28.837%	Swiss-Prot	weak database homology
`Q8GUG9`	Arabidopsis thaliana	U-box domain-containing protein 11	30.667%	Swiss-Prot	weak database homology
`Q9SNC6`	Arabidopsis thaliana	U-box domain-containing protein 13	28.000%	Swiss-Prot	weak database homology

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