LXL04_000105 | RubberDandelionOmics

Gene overview

LXL04_000105

Reference: OH-1004 Chr: Chr01 Coordinates: 2425563-2427254 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

951 bp · LXL04_000105|LXL04_000105|OH1004|cDNA

ATGTTATCTATTTCTTTAAATTTTTCCATATTACAATTTTATTTAACAATACATCGTTTTCTCCGTGCAACGCGCGGACATTCGCCCGGCGGCATACAAAGAGATATAAAGAAGAAAGAAAGCAAGCAGATAAGGGGAAATTTCTCCTGGATTCGAACACAAGAAAGCAGCCAATCGTGGAAACTTTTCTCACTCTCTCTTTCGCGTTTATCCTCTTGCCCTCAATCTCCTTTCTTTGGTTTTGCTCGCCGCAAATCCCT...

CDS

Download CDS FASTA

951 bp · LXL04_000105|LXL04_000105|OH1004|CDS

ATGTTATCTATTTCTTTAAATTTTTCCATATTACAATTTTATTTAACAATACATCGTTTTCTCCGTGCAACGCGCGGACATTCGCCCGGCGGCATACAAAGAGATATAAAGAAGAAAGAAAGCAAGCAGATAAGGGGAAATTTCTCCTGGATTCGAACACAAGAAAGCAGCCAATCGTGGAAACTTTTCTCACTCTCTCTTTCGCGTTTATCCTCTTGCCCTCAATCTCCTTTCTTTGGTTTTGCTCGCCGCAAATCCCT...

Protein

Download Protein FASTA

316 aa · LXL04_000105|LXL04_000105|OH1004|PROTEIN

MLSISLNFSILQFYLTIHRFLRATRGHSPGGIQRDIKKKESKQIRGNFSWIRTQESSQSWKLFSLSLSRLSSCPQSPFFGFARRKSLINSRKRKLTISDTESIFTCKQSVVNGALEAMSICGDCNFLFLEDTHTQQHTTPTTTYNMHDDDDENIHGNVVSGPRLQRSLGTNGRNLPVDWVTGIDGGYIEYVDGEIDGWGPPPTSASFVKNLERLVVGDDVEGLVCVICKDSVCVGSVVNRLPCLHVYHGSCIRPWLNTHN...

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_000105`
TK1151 ID	TkA01G634310
OH-1004 ID	LXL04_000105
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	92.600
Protein coverage (%)	TK1151 92.609 / OH-1004 68.354 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_000105

Location Chr01:2425563-2427254 (+)

Description Similar to rnf181: E3 ubiquitin-protein ligase RNF181

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g20910`	E3 ubiquitin-protein ligase that acts as a negative regulator of abscisic acid (ABA) signaling.	No verified direct reference in this release
`At3g19950`	E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates.	No verified direct reference in this release
`At5g64920`	E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins.	The RING finger motif of photomorphogenic repressor COP1 specifically interacts with the RING-H2 motif of a novel Arabidopsis protein.1999 · DOI: 10.1074/jbc.274.39.27674 Biochemical evidence for ubiquitin ligase activity of the Arabidopsis COP1 interacting protein 8 (CIP8).2002 · DOI: 10.1046/j.1365-313x.2002.01298.x

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_000105 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009738 abscisic acid-activated signaling pathway Biological Process

GO:0009788 negative regulation of abscisic acid-activated signaling pathway Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0004842 ubiquitin-protein transferase activity Molecular Function

GO:0008270 zinc ion binding Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

KEGG gene cross-reference

ath:AT3G19950

ath:AT5G20910

ath:AT5G64920

xla:444028

xtr:496625

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.

Nucleus0.446

Rank 1 · LXL04_000105 · OH-1004

Cytoplasm0.375

Rank 2 · LXL04_000105 · OH-1004

Cell membrane0.147

Rank 3 · LXL04_000105 · OH-1004

Endoplasmic reticulum0.121

Rank 4 · LXL04_000105 · OH-1004

Mitochondrion0.072

Rank 5 · LXL04_000105 · 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.

PF13639.13zf-RING_2225-266 aa

PF13923.13zf-C3HC4_2225-265 aa

PF12678.14zf-rbx1236-266 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_000105	`PF13639.13`	zf-RING_2	225	266	3.4e-12	47.1
LXL04_000105	`PF13923.13`	zf-C3HC4_2	225	265	3.2e-08	34.0
LXL04_000105	`PF12678.14`	zf-rbx1	236	266	3.7e-06	27.8

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
`Q8RXD3`	Arabidopsis thaliana	E3 ubiquitin-protein ligase AIP2	32.540%	Swiss-Prot	weak database homology
`Q8LPN7`	Arabidopsis thaliana	E3 ubiquitin-protein ligase RING1-like	36.000%	Swiss-Prot	weak database homology
`Q9SPL2`	Arabidopsis thaliana	E3 ubiquitin-protein ligase CIP8	44.872%	Swiss-Prot	weak database homology

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