LXL04_018871 | RubberDandelionOmics

Gene overview

LXL04_018871

Reference: OH-1004 Chr: Chr04 Coordinates: 19426541-19431993 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2435 bp · LXL04_018871|LXL04_018871|OH1004|cDNA

ATATCTGAGTTATATATTCACAATTTTGTACcagaaaaaaaataaacaacaaaGCAGGGTGGACTCCGCTTACGAAATCGATTCCTCCCTCTTTGCTTCTCTATCCACGAATCGACGAAAACCTTTTTAAGCTTTTGATCGCAGATTCTTTTCCTCCGCCATATCATAATCGTCTCAGTTTATACCTTGCTGAAGGGACTGGTGTCACAATGACGATGTCTCAGACAAAGACTATTGAGTTGGATGATGGATGGGCATAC...

CDS

Download CDS FASTA

2343 bp · LXL04_018871|LXL04_018871|OH1004|CDS

TTGCTTCTCTATCCACGAATCGACGAAAACCTTTTTAAGCTTTTGATCGCAGATTCTTTTCCTCCGCCATATCATAATCGTCTCAGTTTATACCTTGCTGAAGGGACTGGTGTCACAATGACGATGTCTCAGACAAAGACTATTGAGTTGGATGATGGATGGGCATACATGCAGACTGGGATTAAGAAGCTGAAGAAAATTTTGGAAGGTCATCCAGAGCCCCAATTTAGCTCAGAAGAATACATGATGCTTTACACCAC...

Protein

Download Protein FASTA

780 aa · LXL04_018871|LXL04_018871|OH1004|PROTEIN

MLLYPRIDENLFKLLIADSFPPPYHNRLSLYLAEGTGVTMTMSQTKTIELDDGWAYMQTGIKKLKKILEGHPEPQFSSEEYMMLYTTIYNMCTQKPPHDYSQQLYDKYREAFVDYIGSTVLPQLREKHDEFMLRELVKRWANHKVMVRWLSRFFHYLDRYFIARRSLPALNEVGLTCFRQSVYEEAKGKAKDAVIALIDQEREGEQIDRALLKNVLGIYVEIGMGQMDFYVNDFETDMLTDSAAYYSRKASNWIVEDSCP...

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_018871`
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_018871

Location Chr04:19426541-19431993 (-)

Description Similar to CUL1: Cullin-1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g02570`	Involved in ubiquitination and subsequent proteasomal degradation of target proteins.	Null mutation of AtCUL1 causes arrest in early embryogenesis in Arabidopsis.2002 · DOI: 10.1091/mbc.e02-02-0077 Arabidopsis CAND1, an unmodified CUL1-interacting protein, is involved in multiple developmental pathways controlled by ubiquitin/proteasome-mediated protein Degradation.2004 · DOI: 10.1105/tpc.021949
`At1g02980`	Core component of multiple SCF (SKP1-CUL1-F-box protein) E3 ubiquitin-protein ligase complexes.	No verified direct reference in this release
`At1g43140`	Putative cullin-like protein 1.	No verified direct reference in this release
`At1g59790`	Putative cullin-like protein 2.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0369000`	Involved in ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_018871 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0009733 response to auxin Biological Process

GO:0009734 auxin-activated signaling pathway Biological Process

GO:0009753 response to jasmonic acid Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0009867 jasmonic acid mediated signaling pathway Biological Process

GO:0009873 ethylene-activated signaling pathway Biological Process

GO:0010087 phloem or xylem histogenesis Biological Process

GO:0010265 SCF complex assembly Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0042752 regulation of circadian rhythm Biological Process

GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process Biological Process

KEGG gene cross-reference

ath:AT1G02980

ath:AT1G43140

ath:AT1G59790

ath:AT4G02570

dosa:Os01g0369000

osa:4325735

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.

Cytoplasm0.633

Rank 1 · LXL04_018871 · OH-1004

Nucleus0.253

Rank 2 · LXL04_018871 · OH-1004

Golgi apparatus0.163

Rank 3 · LXL04_018871 · OH-1004

Cell membrane0.137

Rank 4 · LXL04_018871 · OH-1004

Lysosome / Vacuole0.099

Rank 5 · LXL04_018871 · 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.

PF00888.30Cullin64-525 aa

PF26557.1Cullin_AB550-683 aa

PF10557.16Cullin_Nedd8710-772 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018871	`PF00888.30`	Cullin	64	525	1.3e-133	447.4
LXL04_018871	`PF26557.1`	Cullin_AB	550	683	1e-43	149.4
LXL04_018871	`PF10557.16`	Cullin_Nedd8	710	772	3.6e-27	94.9

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
`Q94AH6`	Arabidopsis thaliana	Cullin-1	80.868%	Swiss-Prot	strong database homology
`Q9SRZ0`	Arabidopsis thaliana	Cullin-2	66.667%	Swiss-Prot	strong database homology
`P0CH31`	Arabidopsis thaliana	Putative cullin-like protein 1	65.259%	Swiss-Prot	strong database homology
`Q9XIE9`	Arabidopsis thaliana	Putative cullin-like protein 2	57.995%	Swiss-Prot	weak database homology
`Q5ZC88`	Oryza sativa subsp. japonica	Cullin-1	79.301%	Swiss-Prot	strong database homology

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