LXL04_021846 | RubberDandelionOmics

Gene overview

LXL04_021846

Reference: OH-1004 Chr: Chr04 Coordinates: 138551572-138554446 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1266 bp · LXL04_021846|LXL04_021846|OH1004|cDNA

ATGGCGACCTGGGTGTTATCAGAATGTGGATTAAGACCACTTCCCAGACTATATTCTAATCCCAGAACACGAATCACGAGTTCGAGCTTTCCGAATTCCGTCAGACTAGCTCCGGCGAAGATTTTCCGGCCGAATTCATCGGTTTCAAGAGATAGGAGGTGGGGACTGAAGGTGAGTGCGCCGGTGGGGGTTCAATTTgtggaagaagatgaagaaagaGTGAATGAGATTACCGCCGGAGAAAGTGAGTTCAACCCCGG...

CDS

Download CDS FASTA

1266 bp · LXL04_021846|LXL04_021846|OH1004|CDS

ATGGCGACCTGGGTGTTATCAGAATGTGGATTAAGACCACTTCCCAGACTATATTCTAATCCCAGAACACGAATCACGAGTTCGAGCTTTCCGAATTCCGTCAGACTAGCTCCGGCGAAGATTTTCCGGCCGAATTCATCGGTTTCAAGAGATAGGAGGTGGGGACTGAAGGTGAGTGCGCCGGTGGGGGTTCAATTTGTGGAAGAAGATGAAGAAAGAGTGAATGAGATTACCGCCGGAGAAAGTGAGTTCAACCCCGG...

Protein

Download Protein FASTA

421 aa · LXL04_021846|LXL04_021846|OH1004|PROTEIN

MATWVLSECGLRPLPRLYSNPRTRITSSSFPNSVRLAPAKIFRPNSSVSRDRRWGLKVSAPVGVQFVEEDEERVNEITAGESEFNPGAPPPFTLADIRAAIPKHCWAKNPWKSMSYVVRDVVVVFGLAAVAAYYNNMVVWPLYWAAQGTMFWALFVLGHDCGHGSFSNNAKLNSVVGHLLHSSILVPYHGWRISHRTHHQNHGHVENDESWHPLSEKIYRSLDTATRMLRFTLPFPMLAYPFYLWGRSPGKKGSHFHPDS...

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_021846`
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_021846

Location Chr04:138551572-138554446 (+)

Description Similar to FAD7: Omega-3 fatty acid desaturase, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g05580`	Chloroplast omega-3 fatty acid desaturase introduces the third double bond in the biosynthesis of 16:3 and 18:3 fatty acids, important constituents of plant membranes.	Cloning of a temperature-regulated gene encoding a chloroplast omega-3 desaturase from Arabidopsis thaliana.1994 · DOI: 10.1104/pp.106.4.1615
`At3g11170`	Chloroplast omega-3 fatty acid desaturase introduces the third double bond in the biosynthesis of 16:3 and 18:3 fatty acids, important constituents of plant membranes.	A gene encoding a chloroplast omega-3 fatty acid desaturase complements alterations in fatty acid desaturation and chloroplast copy number of the fad7 mutant of Arabidopsis thaliana.1993 · DOI: 10.1016/s0021-9258(20)80498-0

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_021846 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006633 fatty acid biosynthetic process Biological Process

GO:0006636 unsaturated fatty acid biosynthetic process Biological Process

GO:0009266 response to temperature stimulus Biological Process

GO:0009409 response to cold Biological Process

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009706 chloroplast inner membrane Cellular Component

GO:0009941 chloroplast envelope Cellular Component

GO:0031969 chloroplast membrane Cellular Component

GO:0042170 plastid membrane Cellular Component

GO:0016491 oxidoreductase activity Molecular Function

KEGG gene cross-reference

ath:AT3G11170

ath:AT5G05580

rcu:8265360

sind:105167042

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.

Plastid0.932

Rank 1 · LXL04_021846 · OH-1004

Mitochondrion0.039

Rank 2 · LXL04_021846 · OH-1004

Endoplasmic reticulum0.031

Rank 3 · LXL04_021846 · OH-1004

Golgi apparatus0.020

Rank 4 · LXL04_021846 · OH-1004

Cell membrane0.016

Rank 5 · LXL04_021846 · 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.

PF11960.14DUF34741-129 aa

PF00487.31FA_desaturase140-392 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_021846	`PF11960.14`	DUF3474	1	129	1.6e-52	178.2
LXL04_021846	`PF00487.31`	FA_desaturase	140	392	1.8e-31	110.5

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
`P48622`	Arabidopsis thaliana	Temperature-sensitive sn-2 acyl-lipid omega-3 desaturase (ferredoxin), chloroplastic	73.770%	Swiss-Prot	strong database homology
`P46310`	Arabidopsis thaliana	sn-2 acyl-lipid omega-3 desaturase (ferredoxin), chloroplastic	72.494%	Swiss-Prot	strong database homology

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