LXL04_009683 | RubberDandelionOmics

Gene overview

LXL04_009683

Reference: OH-1004 Chr: Chr02 Coordinates: 131179279-131183781 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1584 bp · LXL04_009683|LXL04_009683|OH1004|cDNA

ATGAACCGGATTCCTACGGTCCTCGAACTAGTGAGTCGTGGTGTTAATATTACTGACAGGAGATGCCGTTTATGTGCCACTGAGATGGAGGATTCTAATCACCTTCTTGTCGGGTGCTCGTTTTCGAAGGAAGTGCTTTCGTGGTTGTTTCAGTGGTGCGACATCACGGCGGTCCATTTCAACTCGGTGACCGAGTTGGTAAACTTCGCAGCCAATTGGGGGAGATGcccaaaaaaaagaaaaatctTTGTTGCTATCAT...

CDS

Download CDS FASTA

1584 bp · LXL04_009683|LXL04_009683|OH1004|CDS

ATGAACCGGATTCCTACGGTCCTCGAACTAGTGAGTCGTGGTGTTAATATTACTGACAGGAGATGCCGTTTATGTGCCACTGAGATGGAGGATTCTAATCACCTTCTTGTCGGGTGCTCGTTTTCGAAGGAAGTGCTTTCGTGGTTGTTTCAGTGGTGCGACATCACGGCGGTCCATTTCAACTCGGTGACCGAGTTGGTAAACTTCGCAGCCAATTGGGGGAGATGCCCAAAAAAAAGAAAAATCTTTGTTGCTATCAT...

Protein

Download Protein FASTA

527 aa · LXL04_009683|LXL04_009683|OH1004|PROTEIN

MNRIPTVLELVSRGVNITDRRCRLCATEMEDSNHLLVGCSFSKEVLSWLFQWCDITAVHFNSVTELVNFAANWGRCPKKRKIFVAIIYGFIWNVWKARNERYHKNANASAKPFTYNSDLLYASYSKTENPNRASSSTFNRRRQLQFSAHRPPSHAGLQIQPHRRTQAWRFSPLASASRRCSFTAVSFFSLQVHREDKKKKMAFATAITSCPHLHFPKRLSVTQQKIRCSSTTSSLSTNFDLKTYWSTLREEINQKLDEAI...

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_009683`
TK1151 ID	TkA03G462260
OH-1004 ID	LXL04_009683
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	92.100
Protein coverage (%)	TK1151 83.486 / OH-1004 69.260 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_009683

Location Chr02:131179279-131183781 (+)

Description Similar to GGR: Heterodimeric geranylgeranyl pyrophosphate synthase small subunit, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g38460`	Heterodimeric geranyl(geranyl)-diphosphate (GPP) synthase small subunit.	No verified direct reference in this release
`At4g36810`	Heterodimeric geranyl(geranyl)-diphosphate (GPP) synthase large subunit.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_009683 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006720 isoprenoid metabolic process Biological Process

GO:0008299 isoprenoid biosynthetic process Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0016117 carotenoid biosynthetic process Biological Process

GO:0033384 geranyl diphosphate biosynthetic process Biological Process

GO:0033386 geranylgeranyl diphosphate biosynthetic process Biological Process

GO:0043693 monoterpene biosynthetic process Biological Process

GO:0045337 farnesyl diphosphate biosynthetic process Biological Process

GO:0005829 cytosol Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009509 chromoplast Cellular Component

GO:0009513 etioplast Cellular Component

KEGG gene cross-reference

ath:AT4G36810

ath:AT4G38460

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.

Plastid0.581

Rank 1 · LXL04_009683 · OH-1004

Mitochondrion0.173

Rank 2 · LXL04_009683 · OH-1004

Cytoplasm0.145

Rank 3 · LXL04_009683 · OH-1004

Peroxisome0.074

Rank 4 · LXL04_009683 · OH-1004

Nucleus0.072

Rank 5 · LXL04_009683 · 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.

PF13966.12zf-RVT2-45 aa

PF00348.23polyprenyl_synt268-471 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_009683	`PF13966.12`	zf-RVT	2	45	2e-06	29.1
LXL04_009683	`PF00348.23`	polyprenyl_synt	268	471	4.8e-35	121.7

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
`Q39108`	Arabidopsis thaliana	Heterodimeric geranylgeranyl pyrophosphate synthase small subunit, chloroplastic	67.302%	Swiss-Prot	moderate database homology
`P34802`	Arabidopsis thaliana	Heterodimeric geranylgeranyl pyrophosphate synthase large subunit 1, chloroplastic	45.455%	Swiss-Prot	moderate database homology

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