LXL04_032909 | RubberDandelionOmics

Gene overview

LXL04_032909

Reference: OH-1004 Chr: Chr07 Coordinates: 31550519-31556732 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2724 bp · LXL04_032909|LXL04_032909|OH1004|cDNA

atgatctTGTCTGATTTCCGATTTCAGTTCGAATGCCATTTCCGAAACCCTAGCACATTTGCGATCGAGATGGGCGAGGATCCGAAGGTGGTTCAGAAGATGACCGGTGAGGATCCGAAGGTGCCGTTTAGATTTCTCTTGAAAATGATGGGGACTATGTCTCTTGGTTCTTCCATCGTCATCGAGAAGAAAGGGGCTGTTACTTTGTTGGGTAATGACAAGAATTACCCATGGTTGTCAAAGAagcacaccaagtgttt...

CDS

Download CDS FASTA

2724 bp · LXL04_032909|LXL04_032909|OH1004|CDS

ATGATCTTGTCTGATTTCCGATTTCAGTTCGAATGCCATTTCCGAAACCCTAGCACATTTGCGATCGAGATGGGCGAGGATCCGAAGGTGGTTCAGAAGATGACCGGTGAGGATCCGAAGGTGCCGTTTAGATTTCTCTTGAAAATGATGGGGACTATGTCTCTTGGTTCTTCCATCGTCATCGAGAAGAAAGGGGCTGTTACTTTGTTGGGTAATGACAAGAATTACCCATGGTTGTCAAAGAAGCACACCAAGTGTTT...

Protein

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907 aa · LXL04_032909|LXL04_032909|OH1004|PROTEIN

MILSDFRFQFECHFRNPSTFAIEMGEDPKVVQKMTGEDPKVPFRFLLKMMGTMSLGSSIVIEKKGAVTLLGNDKNYPWLSKKHTKCLMNCQSEGNVIKPNGVSSHFTKRSVFVNADPGTALLDTERSVLTPNGNVYSGSQNGIGIVNILKGKGFFVTGATGFLGKEKILRTVPDVGKIYLLIKAKDTDAAMERLKNEIINTELFKSLQQAYGKSYQSFMLSKLIPVIGNVCESNLGLDEDTAEIIARDVDIIVNSAANTT...

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_032909`
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_032909

Location Chr07:31550519-31556732 (+)

Description Similar to FAR2: Fatty acyl-CoA reductase 2, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g11980`	Catalyzes the reduction of fatty acyl-CoA and -ACP (acyl carrier protein) substrates to fatty alcohols.	Biochemical characteristics of AtFAR2, a fatty acid reductase from Arabidopsis thaliana that reduces fatty acyl-CoA and -ACP substrates into fatty alcohols.2016 · DOI: 10.18388/abp.2016_1245
`At3g56700`	Catalyzes the reduction of fatty acyl-CoA and -ACP (acyl carrier protein) substrates to fatty alcohols.	Biochemical characterization of a chloroplast localized fatty acid reductase from Arabidopsis thaliana.2012 · DOI: 10.1016/j.bbalip.2011.10.019
`At3g44540`	Catalyzes the reduction of fatty acyl-CoA to fatty alcohols.	Three Arabidopsis fatty acyl-coenzyme A reductases, FAR1, FAR4, and FAR5, generate primary fatty alcohols associated with suberin deposition.2010 · DOI: 10.1104/pp.110.158238 Identification of an Arabidopsis fatty alcohol:caffeoyl-Coenzyme A acyltransferase required for the synthesis of alkyl hydroxycinnamates in root waxes.2012 · DOI: 10.1104/pp.112.201822
`At5g22500`	Catalyzes the reduction of fatty acyl-CoA to fatty alcohols.	Three Arabidopsis fatty acyl-coenzyme A reductases, FAR1, FAR4, and FAR5, generate primary fatty alcohols associated with suberin deposition.2010 · DOI: 10.1104/pp.110.158238 Identification of an Arabidopsis fatty alcohol:caffeoyl-Coenzyme A acyltransferase required for the synthesis of alkyl hydroxycinnamates in root waxes.2012 · DOI: 10.1104/pp.112.201822
`At3g44550`	Catalyzes the reduction of fatty acyl-CoA to fatty alcohols.	Three Arabidopsis fatty acyl-coenzyme A reductases, FAR1, FAR4, and FAR5, generate primary fatty alcohols associated with suberin deposition.2010 · DOI: 10.1104/pp.110.158238 Identification of an Arabidopsis fatty alcohol:caffeoyl-Coenzyme A acyltransferase required for the synthesis of alkyl hydroxycinnamates in root waxes.2012 · DOI: 10.1104/pp.112.201822 Identification of amino acids conferring chain length substrate specificities on fatty alcohol-forming reductases FAR5 and FAR8 from Arabidopsis thaliana.2013 · DOI: 10.1074/jbc.m113.499715

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_032909 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009556 microsporogenesis Biological Process

GO:0009611 response to wounding Biological Process

GO:0009635 response to herbicide Biological Process

GO:0009651 response to salt stress Biological Process

GO:0010345 suberin biosynthetic process Biological Process

GO:0010584 pollen exine formation Biological Process

GO:0035336 long-chain fatty-acyl-CoA metabolic process Biological Process

GO:1903175 fatty alcohol biosynthetic process Biological Process

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0016628 oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor Molecular Function

GO:0080019 alcohol-forming very long-chain fatty acyl-CoA reductase activity Molecular Function

KEGG gene cross-reference

ath:AT3G11980

ath:AT3G44540

ath:AT3G44550

ath:AT3G56700

ath:AT5G22500

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.

Plastid0.468

Rank 1 · LXL04_032909 · OH-1004

Cytoplasm0.229

Rank 2 · LXL04_032909 · OH-1004

Peroxisome0.131

Rank 3 · LXL04_032909 · OH-1004

Nucleus0.087

Rank 4 · LXL04_032909 · OH-1004

Mitochondrion0.082

Rank 5 · LXL04_032909 · 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.

PF01370.28Epimerase155-306 aa

PF07993.19NAD_binding_4156-461 aa

PF03015.25Sterile563-634 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_032909	`PF01370.28`	Epimerase	155	306	3.8e-09	37.0
LXL04_032909	`PF07993.19`	NAD_binding_4	156	461	1e-72	245.1
LXL04_032909	`PF03015.25`	Sterile	563	634	2.3e-17	63.6

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
`Q08891`	Arabidopsis thaliana	Fatty acyl-CoA reductase 2, chloroplastic	61.092%	Swiss-Prot	moderate database homology
`B9TSP7`	Arabidopsis thaliana	Fatty acyl-CoA reductase 6, chloroplastic	43.727%	Swiss-Prot	moderate database homology
`Q9LXN3`	Arabidopsis thaliana	Probable fatty acyl-CoA reductase 4	38.218%	Swiss-Prot	moderate database homology
`Q39152`	Arabidopsis thaliana	Fatty acyl-CoA reductase 1	39.683%	Swiss-Prot	moderate database homology
`Q0WRB0`	Arabidopsis thaliana	Probable fatty acyl-CoA reductase 5	40.278%	Swiss-Prot	moderate database homology

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