LXL04_031138 | RubberDandelionOmics

Gene overview

LXL04_031138

Reference: OH-1004 Chr: Chr07 Coordinates: 1039664-1041399 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

798 bp · LXL04_031138|LXL04_031138|OH1004|cDNA

ATGATATTAATCTCGATTTTGCCTATTCAGTATTCACTATACAGTAGCGTCTCATCGAATTTGTTAATCTCGATTTTGCCGATTTTGATGCTGTTTGGTCTGTATCTTTCTATGAAACCAGTGGAGAGGAATCCAATGGAAATCAATAACCGCTTGGCCCCTTTACAGTCAAATACAGTTTCAATCACTTCTTCACAAGAGTATGGATGCTTAAGGAAAAAGAAAATAGATGAACTTACCGAGGTGCAAAATGATGTCCA...

CDS

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798 bp · LXL04_031138|LXL04_031138|OH1004|CDS

ATGATATTAATCTCGATTTTGCCTATTCAGTATTCACTATACAGTAGCGTCTCATCGAATTTGTTAATCTCGATTTTGCCGATTTTGATGCTGTTTGGTCTGTATCTTTCTATGAAACCAGTGGAGAGGAATCCAATGGAAATCAATAACCGCTTGGCCCCTTTACAGTCAAATACAGTTTCAATCACTTCTTCACAAGAGTATGGATGCTTAAGGAAAAAGAAAATAGATGAACTTACCGAGGTGCAAAATGATGTCCA...

Protein

Download Protein FASTA

265 aa · LXL04_031138|LXL04_031138|OH1004|PROTEIN

MILISILPIQYSLYSSVSSNLLISILPILMLFGLYLSMKPVERNPMEINNRLAPLQSNTVSITSSQEYGCLRKKKIDELTEVQNDVQYIKEDISLVERHRINLYRARDRYLVKIPVHGGELTGSKTWSSSSINKDTILFPSGKPQGSTQMKEASSGLSSQHTNQSSLAVTLKKRVQSEFNDLQHCYLQKRRQVPNPLQNHDKRDDDVIQREGIVQVYQIFNLYFPLLHNIELRHGELFHSANIVSSIEFHRDDEVFATAG...

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_031138`
TK1151 ID	TkA08G088750
OH-1004 ID	LXL04_031138
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	99.100
Protein coverage (%)	TK1151 100.000 / OH-1004 86.038 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_031138

Location Chr07:1039664-1041399 (+)

Description Similar to COP1: E3 ubiquitin-protein ligase COP1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g32950`	E3 ubiquitin-protein ligase that acts as a repressor of photomorphogenesis and as an activator of etiolation in darkness.	Two interacting bZIP proteins are direct targets of COP1-mediated control of light-dependent gene expression in Arabidopsis.2002 · DOI: 10.1101/gad.969702 Short Hypocotyl in White Light1 Interacts with Elongated Hypocotyl5 (HY5) and Constitutive Photomorphogenic1 (COP1) and Promotes COP1-Mediated Degradation of HY5 during Arabidopsis Seedling Development.2015 · DOI: 10.1104/pp.15.01184 PHYTOCHROME INTERACTING FACTOR8 Inhibits Phytochrome A-Mediated Far-Red Light Responses in Arabidopsis.2020 · DOI: 10.1105/tpc.19.00515 Role of a COP1 interactive protein in mediating light-regulated gene expression in arabidopsis.1998 · DOI: 10.1105/tpc.10.7.1083

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_031138 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006281 DNA repair Biological Process

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0009585 red, far-red light phototransduction Biological Process

GO:0009640 photomorphogenesis Biological Process

GO:0009641 shade avoidance Biological Process

GO:0009647 skotomorphogenesis Biological Process

GO:0009649 entrainment of circadian clock Biological Process

GO:0009963 positive regulation of flavonoid biosynthetic process Biological Process

GO:0010119 regulation of stomatal movement Biological Process

GO:0010212 response to ionizing radiation Biological Process

GO:0010224 response to UV-B Biological Process

GO:0016567 protein ubiquitination Biological Process

KEGG gene cross-reference

ath:AT2G32950

hsa:64326

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.

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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.

Nucleus0.560

Rank 1 · LXL04_031138 · OH-1004

Cytoplasm0.336

Rank 2 · LXL04_031138 · OH-1004

Mitochondrion0.073

Rank 3 · LXL04_031138 · OH-1004

Cell membrane0.049

Rank 4 · LXL04_031138 · OH-1004

Lysosome / Vacuole0.040

Rank 5 · LXL04_031138 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

No result was found for this query.

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
`P43254`	Arabidopsis thaliana	E3 ubiquitin-protein ligase COP1	48.230%	Swiss-Prot	moderate database homology

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