LXL04_030700 | RubberDandelionOmics

Gene overview

LXL04_030700

Reference: OH-1004 Chr: Chr06 Coordinates: 121025438-121027504 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2067 bp · LXL04_030700|LXL04_030700|OH1004|cDNA

ATGCTTACACGATTTGATCACAACAGTCGCCGGATTCTCAAGTTTCCGGCGGTTCTTCCGTCTCAAGATGTCAATCCAATCACACTTCTTCGCTCTTTGATCACTCTCTCAAACTCCATCACCAGTTACCAGTCTGAATTCTTCGCTACTCAACGACGAAACGGTCGGGAATCGATACGACAGATTGGGATTCTGTGTTTGTTCTTCGGTGAGCTTGTTGAGCAAGACGTTTCTGGTTTGGCCGATTCTGCTGTGCTCTG...

CDS

Download CDS FASTA

2067 bp · LXL04_030700|LXL04_030700|OH1004|CDS

ATGCTTACACGATTTGATCACAACAGTCGCCGGATTCTCAAGTTTCCGGCGGTTCTTCCGTCTCAAGATGTCAATCCAATCACACTTCTTCGCTCTTTGATCACTCTCTCAAACTCCATCACCAGTTACCAGTCTGAATTCTTCGCTACTCAACGACGAAACGGTCGGGAATCGATACGACAGATTGGGATTCTGTGTTTGTTCTTCGGTGAGCTTGTTGAGCAAGACGTTTCTGGTTTGGCCGATTCTGCTGTGCTCTG...

Protein

Download Protein FASTA

688 aa · LXL04_030700|LXL04_030700|OH1004|PROTEIN

MLTRFDHNSRRILKFPAVLPSQDVNPITLLRSLITLSNSITSYQSEFFATQRRNGRESIRQIGILCLFFGELVEQDVSGLADSAVLCFSELHHSFQKIRFLFEDCTRGGARVFLLMKSHFVATQFLTLIRAVGTALDILPLNSIKVSREVKELVEMVAKQARKARMEVDPEDDYAMKRVMLILNQFENRFEPDPIMIKRVLHYLGINSWSECHREIRFLDEEISLVSVENNERDLHILSTLAGFMRYCRGVLFENSVLEN...

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_030700`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_030700

Location Chr06:121025438-121027504 (+)

Description Similar to PUB19: U-box domain-containing protein 19

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g60190`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At1g10560`	Functions as an E3 ubiquitin ligase (By similarity).	The N-Terminal UND Motif of the Arabidopsis U-Box E3 Ligase PUB18 Is Critical for the Negative Regulation of ABA-Mediated Stomatal Movement and Determines Its Ubiquitination Specificity for Exocyst Subunit Exo70B1.2016 · DOI: 10.1105/tpc.16.00347
`At1g29340`	Functions as an E3 ubiquitin ligase.	The E3 ubiquitin ligase activity of arabidopsis PLANT U-BOX17 and its functional tobacco homolog ACRE276 are required for cell death and defense.2006 · DOI: 10.1105/tpc.105.039198

Rice

Reference gene ID	Possible function	Papers / DOI
`Os06g0102700`	Possesses E3 ubiquitin-protein ligase in vitro.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_030700 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0002237 response to molecule of bacterial origin Biological Process

GO:0009609 response to symbiotic bacterium Biological Process

GO:0009610 response to symbiotic fungus Biological Process

GO:0009738 abscisic acid-activated signaling pathway Biological Process

GO:0009787 regulation of abscisic acid-activated signaling pathway Biological Process

GO:0009877 nodulation Biological Process

GO:0010029 regulation of seed germination Biological Process

GO:0010119 regulation of stomatal movement Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0036377 arbuscular mycorrhizal association Biological Process

GO:0098542 defense response to other organism Biological Process

GO:0005634 nucleus Cellular Component

KEGG gene cross-reference

ath:AT1G10560

ath:AT1G29340

ath:AT1G60190

dosa:Os06g0102700

mtr:11430446

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.

Cytoplasm0.565

Rank 1 · LXL04_030700 · OH-1004

Nucleus0.384

Rank 2 · LXL04_030700 · OH-1004

Cell membrane0.157

Rank 3 · LXL04_030700 · OH-1004

Endoplasmic reticulum0.053

Rank 4 · LXL04_030700 · OH-1004

Lysosome / Vacuole0.045

Rank 5 · LXL04_030700 · 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.

PF25368.2PUB10_N59-164 aa

PF04564.22U-box279-347 aa

PF24768.2ARM_ARMC5384-524 aa

PF25598.2ARM_PUB387-620 aa

PF00514.30Arm413-448 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_030700	`PF25368.2`	PUB10_N	59	164	9.9e-10	39.8
LXL04_030700	`PF04564.22`	U-box	279	347	6.8e-19	68.5
LXL04_030700	`PF24768.2`	ARM_ARMC5	384	524	2.6e-08	34.3
LXL04_030700	`PF25598.2`	ARM_PUB	387	620	6.2e-19	69.3
LXL04_030700	`PF00514.30`	Arm	413	448	5.1e-13	49.3

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
`O80742`	Arabidopsis thaliana	U-box domain-containing protein 19	40.597%	Swiss-Prot	moderate database homology
`Q9XIJ5`	Arabidopsis thaliana	U-box domain-containing protein 18	38.986%	Swiss-Prot	moderate database homology
`Q9C7R6`	Arabidopsis thaliana	U-box domain-containing protein 17	30.922%	Swiss-Prot	moderate database homology
`Q5VRH9`	Oryza sativa subsp. japonica	U-box domain-containing protein 12	34.737%	Swiss-Prot	moderate database homology

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