LXL04_006807 | RubberDandelionOmics

Gene overview

LXL04_006807

Reference: OH-1004 Chr: Chr02 Coordinates: 25936772-25939281 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1707 bp · LXL04_006807|LXL04_006807|OH1004|cDNA

ATGGGTGGTCTTTTGGCAATTTTCTTGTCGTTGGTAGCAATATTATCTCTTCTTCCAGTGTATACTATTGGTGGAACTACGAGGAGCTATGAGTTTAATATTCAGTTGCAAAACATGACACGACTATGCCACACAAGGAGCATGGTTACGGTCAATGGCAAATTTCCGGGTCCACAAATTTTCGCTAGGGAGGGTGACCGCCTTCTTATCAAAGTTACTAACCATGTCTCCCATAATATTAGTATCCACTGGCATGGTAT...

CDS

Download CDS FASTA

1707 bp · LXL04_006807|LXL04_006807|OH1004|CDS

ATGGGTGGTCTTTTGGCAATTTTCTTGTCGTTGGTAGCAATATTATCTCTTCTTCCAGTGTATACTATTGGTGGAACTACGAGGAGCTATGAGTTTAATATTCAGTTGCAAAACATGACACGACTATGCCACACAAGGAGCATGGTTACGGTCAATGGCAAATTTCCGGGTCCACAAATTTTCGCTAGGGAGGGTGACCGCCTTCTTATCAAAGTTACTAACCATGTCTCCCATAATATTAGTATCCACTGGCATGGTAT...

Protein

Download Protein FASTA

568 aa · LXL04_006807|LXL04_006807|OH1004|PROTEIN

MGGLLAIFLSLVAILSLLPVYTIGGTTRSYEFNIQLQNMTRLCHTRSMVTVNGKFPGPQIFAREGDRLLIKVTNHVSHNISIHWHGIRQLRSGWADGPAYITQCPIQTGQTYVYNYTIVGQRGTLFWHAHISWLRASVYGAIIILPKLNVPYPFTKPYKEVPIIFGEWFNTDPEAIISQATQTGGGPNVSDAYTFNGFPGPLYNCSVQDTFKLKVKPAKTYLLRLINAALNDELFFSIANHTLTVVEVDAIYVKPFDTKT...

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_006807`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_006807

Location Chr02:25936772-25939281 (+)

Description Similar to LAC17: Laccase-17

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g60020`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release
`At2g29130`	Lignin degradation and detoxification of lignin-derived products (By similarity).	Mutant identification and characterization of the laccase gene family in Arabidopsis.2006 · DOI: 10.1093/jxb/erl022

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0842400`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release
`Os03g0273200`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release
`Os05g0458600`	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_006807 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009414 response to water deprivation Biological Process

GO:0009698 phenylpropanoid metabolic process Biological Process

GO:0009809 lignin biosynthetic process Biological Process

GO:0046274 lignin catabolic process Biological Process

GO:0080022 primary root development Biological Process

GO:0080112 seed growth 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:AT2G29130

ath:AT5G60020

dosa:Os01g0842400

dosa:Os03g0273200

dosa:Os05g0458600

osa:4339003

osa:4339004

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.

Extracellular0.811

Rank 1 · LXL04_006807 · OH-1004

Cytoplasm0.069

Rank 2 · LXL04_006807 · OH-1004

Endoplasmic reticulum0.049

Rank 3 · LXL04_006807 · OH-1004

Cell membrane0.043

Rank 4 · LXL04_006807 · OH-1004

Lysosome / Vacuole0.032

Rank 5 · LXL04_006807 · 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.

PF07732.22Cu-oxidase_334-147 aa

PF00394.29Cu-oxidase160-311 aa

PF07731.21Cu-oxidase_2427-550 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_006807	`PF07732.22`	Cu-oxidase_3	34	147	1.8e-41	141.7
LXL04_006807	`PF00394.29`	Cu-oxidase	160	311	3.6e-43	148.1
LXL04_006807	`PF07731.21`	Cu-oxidase_2	427	550	4.3e-41	140.6

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
`Q9FJD5`	Arabidopsis thaliana	Laccase-17	75.694%	Swiss-Prot	strong database homology
`O81081`	Arabidopsis thaliana	Laccase-2	70.438%	Swiss-Prot	strong database homology
`Q5N9X2`	Oryza sativa subsp. japonica	Laccase-4	73.732%	Swiss-Prot	strong database homology
`Q10ND7`	Oryza sativa subsp. japonica	Laccase-10	70.599%	Swiss-Prot	strong database homology
`P0DKK6`	Oryza sativa subsp. japonica	Laccase-13	71.174%	Swiss-Prot	strong database homology

JBrowse

View in Genome Browser

Gene Card