TkA01G499770 | RubberDandelionOmics

Gene overview

TkA01G499770

Reference: TK1151 Chr: Chr01 Coordinates: 125209541-125212408 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

877 bp · TkA01G499770|TK1151|cDNA

AACCGATGAACGTTTCTCAATTGGCCACCAACTGCAATGCCACACACACAAATTGAACTCGTAGATAAGGTGCCCCTTTCTCCCCTTCTCCTCCCAATTTCTCTTATGGTCAAATCAAGAAAACCGATATATATACACCACCAAAATCGCTGTTTCTAACGCTGTGCTCTTTTGTACCTTCTAATTAAAGCAAAATCAGAGTTAAAAACCAAATTCGTTGTTAGCATATGTGGACATTTAGGATCCACTGAAAATTTAGT...

CDS

Download CDS FASTA

1272 bp · TkA01G499770|TK1151|CDS

ATGATGCCGGCGACATGCCATAATCTTGAGTTTGGTCGAACTGCGTTTGTTGATTTCGTTCCTTGTGGGTGTTCTTTCAGTTCTTCATTCGACCGCTTTCCTTCAAGAAATTACGCACGAAAGGTGATCAGAAGTGTGAATAGGGGCTTCTATGGCGGTGGCGGTGGCCGGAATTCGATATTTTGCCGCCGTGATGGTAATATCGCAAAGTGTCGAGTTTTTTCAACTGAAGCTCCCGAGACTTTACTAAATGGCGATGC...

Protein

Download Protein FASTA

423 aa · TkA01G499770|TK1151|PROTEIN

MMPATCHNLEFGRTAFVDFVPCGCSFSSSFDRFPSRNYARKVIRSVNRGFYGGGGGRNSIFCRRDGNIAKCRVFSTEAPETLLNGDAPGPPPVINEKKESTTDLFEAVSDDLLTLNKNLQSIVGAENPVLMAAAEQIFSAGGKRMRPALVFLVSRATSALAGLEELTREHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQMYGTRVAVLAGDFMFAQSSWYLANLENLEVIKLISQVIKDFASGEIKQASSLFDC...

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	`TkA01G499770`
TK1151 ID	TkA01G499770
OH-1004 ID	LXL04_001903
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.800
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	TK1151 / GWHBCHF00000000

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA01G499770

Location Chr01:125209541-125212408 (+)

Description Similar to SPS2: Solanesyl diphosphate synthase 2, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g17050`	Involved in providing solanesyl diphosphate for plastoquinone-9 (PQ-9) formation in plastids (Probable).	Functional modeling identifies paralogous solanesyl-diphosphate synthases that assemble the side chain of plastoquinone-9 in plastids.2013 · DOI: 10.1074/jbc.m113.492769
`At1g78510`	Involved in providing solanesyl diphosphate for plastoquinone-9 (PQ-9) formation in plastids.	Functional modeling identifies paralogous solanesyl-diphosphate synthases that assemble the side chain of plastoquinone-9 in plastids.2013 · DOI: 10.1074/jbc.m113.492769

Rice

Reference gene ID	Possible function	Papers / DOI
`Os12g0271700`	Involved in providing solanesyl diphosphate for plastoquinone-9 (PQ-9) formation.	No verified direct reference in this release
`Os05g0582300`	Involved in providing solanesyl diphosphate for plastoquinone-9 (PQ-9) formation.	Two solanesyl diphosphate synthases with different subcellular localizations and their respective physiological roles in Oryza sativa.2010 · DOI: 10.1093/jxb/erq103

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_001903 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

GO annotations (OH1004 source)

GO:0008299 isoprenoid biosynthetic process Biological Process

GO:0010236 plastoquinone biosynthetic process Biological Process

GO:0015979 photosynthesis Biological Process

GO:0005739 mitochondrion Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009536 plastid Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0004311 geranylgeranyl diphosphate synthase activity Molecular Function

GO:0004337 (2E,6E)-farnesyl diphosphate synthase activity Molecular Function

GO:0004659 prenyltransferase activity Molecular Function

GO:0046872 metal ion binding Molecular Function

GO:0052923 all-trans-nonaprenyl-diphosphate synthase (geranyl-diphosphate specific) activity Molecular Function

KEGG gene cross-reference

ath:AT1G17050

ath:AT1G78510

dosa:Os12g0271700

osa:4351957

syn:slr0611

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.

Plastid0.964

Rank 1 · TkA01G499770 · TK1151

Mitochondrion0.056

Rank 2 · TkA01G499770 · TK1151

Cytoplasm0.040

Rank 3 · TkA01G499770 · TK1151

Peroxisome0.029

Rank 4 · TkA01G499770 · TK1151

Nucleus0.021

Rank 5 · TkA01G499770 · TK1151

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.

PF00348polyprenyl_synt128-374 aa

PF07307HEPPP_synt_1167-279 aa

PF11560LAP2alpha249-298 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G499770	`PF00348`	polyprenyl_synt	128	374	6.3e-77	258.9
TkA01G499770	`PF07307`	HEPPP_synt_1	167	279	0.0023	18.3
TkA01G499770	`PF11560`	LAP2alpha	249	298	0.12	12.5

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
`Q76FS5`	Arabidopsis thaliana	sp\|Q76FS5\|SPS2_ARATH Solanesyl diphosphate synthase 2, chloroplastic	68.900%	Swiss-Prot	High
`Q8S948`	Arabidopsis thaliana	sp\|Q8S948\|SPS1_ARATH Solanesyl diphosphate synthase 1, chloroplastic	67.100%	Swiss-Prot	High
`Q0INZ4`	Oryza sativa subsp. japonica	sp\|Q0INZ4\|SPS3_ORYSJ Probable solanesyl-diphosphate synthase 3, chloroplastic	77.800%	Swiss-Prot	High
`Q75HZ9`	Oryza sativa subsp. japonica	sp\|Q75HZ9\|SPS2_ORYSJ Solanesyl-diphosphate synthase 2, chloroplastic	77.200%	Swiss-Prot	High

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