LXL04_000679 | RubberDandelionOmics

Gene overview

LXL04_000679

Reference: OH-1004 Chr: Chr01 Coordinates: 12491950-12494563 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1770 bp · LXL04_000679|LXL04_000679|OH1004|cDNA

ATGTCCTGTTGTataattcactataaatacACCACCATTTTTTGCAACAAAATCACACTtgtaaacactacaaacacaatGGACTCCGTTATCAGTTATTTTTTCAATGCCATTTTGGTTGCTGTCATCTTTACACTTGTTCCCATAACCAATGCTAATGAAGAAACTCATTACCATGAGTTTAATGTTCAAGAGCAAGCGGTCAAGAGGCTATGCAAATCCCATACGATAATAACAGTCAATGGACAATTTCCGGGGCC...

CDS

Download CDS FASTA

1770 bp · LXL04_000679|LXL04_000679|OH1004|CDS

ATGTCCTGTTGTATAATTCACTATAAATACACCACCATTTTTTGCAACAAAATCACACTTGTAAACACTACAAACACAATGGACTCCGTTATCAGTTATTTTTTCAATGCCATTTTGGTTGCTGTCATCTTTACACTTGTTCCCATAACCAATGCTAATGAAGAAACTCATTACCATGAGTTTAATGTTCAAGAGCAAGCGGTCAAGAGGCTATGCAAATCCCATACGATAATAACAGTCAATGGACAATTTCCGGGGCC...

Protein

Download Protein FASTA

589 aa · LXL04_000679|LXL04_000679|OH1004|PROTEIN

MSCCIIHYKYTTIFCNKITLVNTTNTMDSVISYFFNAILVAVIFTLVPITNANEETHYHEFNVQEQAVKRLCKSHTIITVNGQFPGPTLEVRNGDAVIVKVTNKARYNVTIHWHGLRQMQNPWADGPEMVTQCPIMPGNSYTYRFSIQDQEGTLWWHAHSRWLRATVYGALVIHPKLGASYPFPKPKVELPIVLGEWWNRDIISVLRQALFSGAAPNISDALTINGQPGDLIKCSQQGTIKYSVNSGDTVLLRVINAALN...

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_000679`
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_000679

Location Chr01:12491950-12494563 (-)

Description Similar to LAC3: Laccase-3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g30210`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release
`At5g05390`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release
`At5g07130`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release
`At2g40370`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0827300`	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_000679 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0046274 lignin catabolic process Biological Process

GO:0046688 response to copper ion Biological Process

GO:1990641 response to iron ion starvation Biological Process

GO:0005576 extracellular region Cellular Component

GO:0048046 apoplast Cellular Component

GO:0048226 Casparian strip 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:AT2G30210

ath:AT2G40370

ath:AT5G05390

ath:AT5G07130

dosa:Os01g0827300

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.

Extracellular0.913

Rank 1 · LXL04_000679 · OH-1004

Cytoplasm0.035

Rank 2 · LXL04_000679 · OH-1004

Cell membrane0.029

Rank 3 · LXL04_000679 · OH-1004

Endoplasmic reticulum0.023

Rank 4 · LXL04_000679 · OH-1004

Golgi apparatus0.013

Rank 5 · LXL04_000679 · 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_363-176 aa

PF00394.29Cu-oxidase190-338 aa

PF07731.21Cu-oxidase_2438-571 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_000679	`PF07732.22`	Cu-oxidase_3	63	176	6.4e-48	162.5
LXL04_000679	`PF00394.29`	Cu-oxidase	190	338	2.5e-44	151.9
LXL04_000679	`PF07731.21`	Cu-oxidase_2	438	571	3.7e-44	150.5

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
`Q56YT0`	Arabidopsis thaliana	Laccase-3	66.120%	Swiss-Prot	strong database homology
`Q9FLB5`	Arabidopsis thaliana	Laccase-12	68.207%	Swiss-Prot	strong database homology
`Q9LYQ2`	Arabidopsis thaliana	Laccase-13	65.744%	Swiss-Prot	strong database homology
`Q9SIY8`	Arabidopsis thaliana	Laccase-5	62.787%	Swiss-Prot	strong database homology
`Q941X2`	Oryza sativa subsp. japonica	Laccase-3	63.919%	Swiss-Prot	strong database homology

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