LXL04_018249 | RubberDandelionOmics

Gene overview

LXL04_018249

Reference: OH-1004 Chr: Chr04 Coordinates: 9491784-9492488 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

705 bp · LXL04_018249|LXL04_018249|OH1004|cDNA

ATGGATTTTGCTCCAAAACCCAAATCTACCATACCCTTAGACTTCCATATCCTGTACCTCCACAATCCATGCCTTTTTACCGTCACTGATTTCATCTTCTCGCTCCTCAAAACCACCACCAGTACCTCCGGAACTGCATCACTCATTCACGCCACCACCCGCCGCTTCATTCCTTACTCCGACGTGCCACTTCTTGTACGTAACCTTGCAGTCTCACTCCGCCAACCGCCATTGTCACTCACAAATGGAGCGTGTTCTTT...

CDS

Download CDS FASTA

705 bp · LXL04_018249|LXL04_018249|OH1004|CDS

ATGGATTTTGCTCCAAAACCCAAATCTACCATACCCTTAGACTTCCATATCCTGTACCTCCACAATCCATGCCTTTTTACCGTCACTGATTTCATCTTCTCGCTCCTCAAAACCACCACCAGTACCTCCGGAACTGCATCACTCATTCACGCCACCACCCGCCGCTTCATTCCTTACTCCGACGTGCCACTTCTTGTACGTAACCTTGCAGTCTCACTCCGCCAACCGCCATTGTCACTCACAAATGGAGCGTGTTCTTT...

Protein

Download Protein FASTA

234 aa · LXL04_018249|LXL04_018249|OH1004|PROTEIN

MDFAPKPKSTIPLDFHILYLHNPCLFTVTDFIFSLLKTTTSTSGTASLIHATTRRFIPYSDVPLLVRNLAVSLRQPPLSLTNGACSFVIAPNSSYLPILYLSLFSLGVVVSPLNPASSTQEISRQLRLCKQVVAFATVESANKLLEVGFPNPVVVIDSNEFVSMMRAELNGSESKIDVLQSDTAAILYSSGTTGKIKGVKLTHRNLISTNAGASFGRHPQLDLRRFPLVTFPLL

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_018249`
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_018249

Location Chr04:9491784-9492488 (-)

Description Similar to 4CLL9: 4-coumarate--CoA ligase-like 9

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g63380`	Contributes to jasmonic acid biosynthesis by initiating the beta-oxidative chain shortening of its precursors.	A new type of peroxisomal acyl-coenzyme A synthetase from Arabidopsis thaliana has the catalytic capacity to activate biosynthetic precursors of jasmonic acid.2005 · DOI: 10.1074/jbc.m413578200
`At4g19010`	Contributes to jasmonic acid biosynthesis by initiating the beta-oxidative chain shortening of its precursors.	The Origin and Biosynthesis of the Benzenoid Moiety of Ubiquinone (Coenzyme Q) in Arabidopsis.2014 · DOI: 10.1105/tpc.114.125807
`At1g20510`	Contributes to jasmonic acid biosynthesis by initiating the beta-oxidative chain shortening of its precursors.	Identification of a peroxisomal acyl-activating enzyme involved in the biosynthesis of jasmonic acid in Arabidopsis.2006 · DOI: 10.1074/jbc.m607854200 Jasmonates meet fatty acids: functional analysis of a new acyl-coenzyme A synthetase family from Arabidopsis thaliana.2008 · DOI: 10.1093/jxb/erm325

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0901500`	Carboxylate--CoA ligase that may use 4-coumarate as substrate.	No verified direct reference in this release
`Os07g0280200`	Carboxylate--CoA ligase that may use 4-coumarate as substrate.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_018249 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006744 ubiquinone biosynthetic process Biological Process

GO:0009611 response to wounding Biological Process

GO:0009617 response to bacterium Biological Process

GO:0009695 jasmonic acid biosynthetic process Biological Process

GO:0009698 phenylpropanoid metabolic process Biological Process

GO:0009753 response to jasmonic acid Biological Process

GO:0031408 oxylipin biosynthetic process Biological Process

GO:0005739 mitochondrion Cellular Component

GO:0005777 peroxisome Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0004321 fatty-acyl-CoA synthase activity Molecular Function

GO:0005524 ATP binding Molecular Function

KEGG gene cross-reference

ath:AT1G20510

ath:AT4G19010

ath:AT5G63380

dosa:Os01g0901500

dosa:Os07g0280200

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.

Cytoplasm0.636

Rank 1 · LXL04_018249 · OH-1004

Nucleus0.463

Rank 2 · LXL04_018249 · OH-1004

Plastid0.062

Rank 3 · LXL04_018249 · OH-1004

Endoplasmic reticulum0.058

Rank 4 · LXL04_018249 · OH-1004

Mitochondrion0.036

Rank 5 · LXL04_018249 · 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.

PF00501.35AMP-binding54-215 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018249	`PF00501.35`	AMP-binding	54	215	4.1e-23	82.5

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q84P23`	Arabidopsis thaliana	4-coumarate--CoA ligase-like 9	41.206%	Swiss-Prot	moderate database homology
`Q84P24`	Arabidopsis thaliana	4-coumarate--CoA ligase-like 6	36.571%	Swiss-Prot	moderate database homology
`Q84P21`	Arabidopsis thaliana	Peroxisomal OPC-8:0-CoA ligase 1	32.653%	Swiss-Prot	moderate database homology
`Q7F1X5`	Oryza sativa subsp. japonica	4-coumarate--CoA ligase-like 5	41.270%	Swiss-Prot	moderate database homology
`Q69RG7`	Oryza sativa subsp. japonica	4-coumarate--CoA ligase-like 7	40.588%	Swiss-Prot	moderate database homology

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