LXL04_021867 | RubberDandelionOmics

Gene overview

LXL04_021867

Reference: OH-1004 Chr: Chr04 Coordinates: 138907292-138908365 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

717 bp · LXL04_021867|LXL04_021867|OH1004|cDNA

ATGGCGATGTCTCGAGTCTCGACTATGGTCTGGCTTGCGTCGTCCGACTTGCGACGTGAGATGTGTTGGACTCCCGCGATCAATGATTGGGCCCTGTGCAAGCAACCACTTTGCCCCTGCATAGCTACGCCCTTGAACCCGTGTTCTACTTGCGTTAATGGAAGTAGACTTGTGGCGGGAATTAATAATGTTACGTTTGTGATGCCCACCACAGCTCTGCTTCAAGCACATTATTTTAACATAAGTGGGGTCTCCACTGA...

CDS

Download CDS FASTA

717 bp · LXL04_021867|LXL04_021867|OH1004|CDS

ATGGCGATGTCTCGAGTCTCGACTATGGTCTGGCTTGCGTCGTCCGACTTGCGACGTGAGATGTGTTGGACTCCCGCGATCAATGATTGGGCCCTGTGCAAGCAACCACTTTGCCCCTGCATAGCTACGCCCTTGAACCCGTGTTCTACTTGCGTTAATGGAAGTAGACTTGTGGCGGGAATTAATAATGTTACGTTTGTGATGCCCACCACAGCTCTGCTTCAAGCACATTATTTTAACATAAGTGGGGTCTCCACTGA...

Protein

Download Protein FASTA

238 aa · LXL04_021867|LXL04_021867|OH1004|PROTEIN

MAMSRVSTMVWLASSDLRREMCWTPAINDWALCKQPLCPCIATPLNPCSTCVNGSRLVAGINNVTFVMPTTALLQAHYFNISGVSTDDFPGNPVTPYNYTGNGPTNIQTRSGTKVYRLAYNSTVQVVIQGNAVIAPESHPIHLHGSNFFVVGKGLGNYDPMNDPKKFNLVDPVERNTLTVPTVGWIVIRFRADNPGVWFMHCHLEVHTTWGLKIAFLVDNGNGPNESIIPPPKDLPTC

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_021867`
TK1151 ID	TkA05G429740
OH-1004 ID	LXL04_021867
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 71.849 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_021867

Location Chr04:138907292-138908365 (+)

Description Similar to LAC22: Laccase-22

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g38080`	Lignin degradation and detoxification of lignin-derived products (By similarity).	No verified direct reference in this release
`At5g58910`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release
`At5g01190`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os11g0708100`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release
`Os01g0634500`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_021867 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009809 lignin biosynthetic process Biological Process

GO:0009834 plant-type secondary cell wall biogenesis Biological Process

GO:0046274 lignin catabolic process Biological Process

GO:0005576 extracellular region Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0048046 apoplast Cellular Component

GO:0005507 copper ion binding Molecular Function

GO:0016491 oxidoreductase activity Molecular Function

GO:0052716 hydroquinone:oxygen oxidoreductase activity Molecular Function

KEGG gene cross-reference

ath:AT2G38080

ath:AT5G01190

ath:AT5G58910

osa:107276614

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.

Extracellular0.825

Rank 1 · LXL04_021867 · OH-1004

Cytoplasm0.067

Rank 2 · LXL04_021867 · OH-1004

Cell membrane0.047

Rank 3 · LXL04_021867 · OH-1004

Endoplasmic reticulum0.043

Rank 4 · LXL04_021867 · OH-1004

Lysosome / Vacuole0.031

Rank 5 · LXL04_021867 · 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.

PF07731.21Cu-oxidase_291-221 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_021867	`PF07731.21`	Cu-oxidase_2	91	221	7.5e-41	139.8

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.

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Protein	Organism	Description	Identity	Database	Confidence
`O80434`	Arabidopsis thaliana	Laccase-4	70.408%	Swiss-Prot	strong database homology
`Q1PDH6`	Arabidopsis thaliana	Laccase-16	68.205%	Swiss-Prot	strong database homology
`Q6ID18`	Arabidopsis thaliana	Laccase-10	66.327%	Swiss-Prot	strong database homology
`Q0IQU1`	Oryza sativa subsp. japonica	Laccase-22	65.347%	Swiss-Prot	strong database homology
`Q8RYM9`	Oryza sativa subsp. japonica	Laccase-2	60.591%	Swiss-Prot	strong database homology

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