LXL04_031200 | RubberDandelionOmics

Gene overview

LXL04_031200

Reference: OH-1004 Chr: Chr07 Coordinates: 2338933-2349815 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1722 bp · LXL04_031200|LXL04_031200|OH1004|cDNA

ATGAAAATGAAGAACGGTATGGCTTTGCACGTTCTAGCTTTTCTTCTGGTTCTTGGTTTCATCCAGTACTCTCAATCAGCGTTGGTTCCAAAAACTTATGACTATGAGATTAAAGAAGCTAACTTTACAAGGCTATGCAAGAACAAGACAATCTTGACTGTTAATGGAGAATTTCCTGGTCCGACTATTTATGCTCGTAGAGGAGACACGGTGGTTGTTAATGTTTACAACCGAGGCAACCTTGGTATCACGATTCATTG...

CDS

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1722 bp · LXL04_031200|LXL04_031200|OH1004|CDS

ATGAAAATGAAGAACGGTATGGCTTTGCACGTTCTAGCTTTTCTTCTGGTTCTTGGTTTCATCCAGTACTCTCAATCAGCGTTGGTTCCAAAAACTTATGACTATGAGATTAAAGAAGCTAACTTTACAAGGCTATGCAAGAACAAGACAATCTTGACTGTTAATGGAGAATTTCCTGGTCCGACTATTTATGCTCGTAGAGGAGACACGGTGGTTGTTAATGTTTACAACCGAGGCAACCTTGGTATCACGATTCATTG...

Protein

Download Protein FASTA

573 aa · LXL04_031200|LXL04_031200|OH1004|PROTEIN

MKMKNGMALHVLAFLLVLGFIQYSQSALVPKTYDYEIKEANFTRLCKNKTILTVNGEFPGPTIYARRGDTVVVNVYNRGNLGITIHWHGVKQPRYPWSDGPEFITQCPIQPGANFTQKIILSDEEGTLWWHAHSDWTRATVHGLIVVWPKIGRPYPFHKPYAEFPIILGEWFRQDVEAVLLDFMRTGGDPNSSDALTINGQPGDLYPCSSAETTKFIVEQGKTYMLRMVNAAMNLLMFWAIGDHEVTVVGTDGAYVKPLK...

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_031200`
TK1151 ID	TkA08G093760
OH-1004 ID	LXL04_031200
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_031200

Location Chr07:2338933-2349815 (+)

Description Similar to LAC9: Putative laccase-9

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g48100`	Lignin degradation and detoxification of lignin-derived products (By similarity).	TRANSPARENT TESTA10 encodes a laccase-like enzyme involved in oxidative polymerization of flavonoids in Arabidopsis seed coat.2005 · DOI: 10.1105/tpc.105.035154 Involvement of AtLAC15 in lignin synthesis in seeds and in root elongation of Arabidopsis.2006 · DOI: 10.1007/s00425-006-0300-6 Mutant identification and characterization of the laccase gene family in Arabidopsis.2006 · DOI: 10.1093/jxb/erl022
`At5g09360`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0749700`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release
`Os11g0696900`	Lignin degradation and detoxification of lignin-derived products.	No verified direct reference in this release
`Os01g0374600`	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_031200 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009809 lignin biosynthetic process Biological Process

GO:0009813 flavonoid biosynthetic process Biological Process

GO:0010023 proanthocyanidin biosynthetic process Biological Process

GO:0046274 lignin catabolic process Biological Process

GO:0046688 response to copper ion Biological Process

GO:0005576 extracellular region 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:AT5G09360

ath:AT5G48100

dosa:Os01g0374600

dosa:Os11g0696900

osa:107276196

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.

Extracellular0.785

Rank 1 · LXL04_031200 · OH-1004

Cell membrane0.070

Rank 2 · LXL04_031200 · OH-1004

Cytoplasm0.060

Rank 3 · LXL04_031200 · OH-1004

Endoplasmic reticulum0.050

Rank 4 · LXL04_031200 · OH-1004

Lysosome / Vacuole0.030

Rank 5 · LXL04_031200 · 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_337-150 aa

PF00394.29Cu-oxidase163-313 aa

PF07731.21Cu-oxidase_2428-555 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_031200	`PF07732.22`	Cu-oxidase_3	37	150	1.9e-39	135.1
LXL04_031200	`PF00394.29`	Cu-oxidase	163	313	1.5e-38	133.1
LXL04_031200	`PF07731.21`	Cu-oxidase_2	428	555	3.8e-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
`Q84J37`	Arabidopsis thaliana	Laccase-15	54.643%	Swiss-Prot	strong database homology
`Q9FY79`	Arabidopsis thaliana	Laccase-14	51.681%	Swiss-Prot	strong database homology
`Q6Z8L2`	Oryza sativa subsp. japonica	Putative laccase-9	54.137%	Swiss-Prot	strong database homology
`Q2QZ80`	Oryza sativa subsp. japonica	Laccase-21	51.897%	Swiss-Prot	strong database homology
`Q5ZCW1`	Oryza sativa subsp. japonica	Putative laccase-1	52.424%	Swiss-Prot	strong database homology

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