LXL04_023061 | RubberDandelionOmics

Gene overview

LXL04_023061

Reference: OH-1004 Chr: Chr05 Coordinates: 21793903-21795371 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

927 bp · LXL04_023061|LXL04_023061|OH1004|cDNA

ATGGAGGCCACAGTTTCCCAAAGCTTACGGTTGACAACATGGACAAATTCAGAGAATACGGTTCCAAAACTGACCAATTCCATGAGGTTATATACAAGATTTgagaaaaataaaaacattaataTGCTTAAATGCAATCATTTGGGAACAATAAAACCAGCAATTGGGCATAGATCAGCATGGCTAAAGGCTTCATGTACTTCTCAAAACTCTCCAGCTTCAGTACTCAAGTCCGAAACTTCTATTACTGAAGAGGATTT...

CDS

Download CDS FASTA

882 bp · LXL04_023061|LXL04_023061|OH1004|CDS

ATGGAGGCCACAGTTTCCCAAAGCTTACGGTTGACAACATGGACAAATTCAGAGAATACGGTTCCAAAACTGACCAATTCCATGAGGTTATATACAAGATTTGAGAAAAATAAAAACATTAATATGCTTAAATGCAATCATTTGGGAACAATAAAACCAGCAATTGGGCATAGATCAGCATGGCTAAAGGCTTCATGTACTTCTCAAAACTCTCCAGCTTCAGTACTCAAGTCCGAAACTTCTATTACTGAAGAGGATTT...

Protein

Download Protein FASTA

293 aa · LXL04_023061|LXL04_023061|OH1004|PROTEIN

MEATVSQSLRLTTWTNSENTVPKLTNSMRLYTRFEKNKNINMLKCNHLGTIKPAIGHRSAWLKASCTSQNSPASVLKSETSITEEDLLLKKKCEEIKLGVSKNRTENQNRTNNRKNRNRKNRNRDNNRKNRNRKNRTETVTITAKTATAKTEPQPKPQPHRKTLDQTMSKWKMHLSCWNDRIRKKQQSARFYQKFLIILFSTACSDKLIEQAARGIAVADIFKLYGKGYFRDNETEVLHKLSLMHGLVISTSGGAVVRPI...

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_023061`
TK1151 ID	TkA06G406850
OH-1004 ID	LXL04_023061
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	89.300
Protein coverage (%)	TK1151 92.188 / OH-1004 60.410 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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_023061

Location Chr05:21793903-21795371 (+)

Description Similar to SK: Shikimate kinase, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g39540`	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0640600`	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate.	No verified direct reference in this release
`Os02g0749300`	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate.	No verified direct reference in this release
`Os06g0225800`	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_023061 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0008652 amino acid biosynthetic process Biological Process

GO:0009073 aromatic amino acid family biosynthetic process Biological Process

GO:0009423 chorismate biosynthetic process Biological Process

GO:0019632 shikimate metabolic process Biological Process

GO:0009507 chloroplast Cellular Component

GO:0009536 plastid Cellular Component

GO:0004765 shikimate kinase activity Molecular Function

GO:0005524 ATP binding Molecular Function

GO:0046872 metal ion binding Molecular Function

KEGG gene cross-reference

ath:AT4G39540

dosa:Os02g0749300

dosa:Os04g0640600

sly:544078

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.

Mitochondrion0.573

Rank 1 · LXL04_023061 · OH-1004

Plastid0.360

Rank 2 · LXL04_023061 · OH-1004

Cytoplasm0.057

Rank 3 · LXL04_023061 · OH-1004

Nucleus0.044

Rank 4 · LXL04_023061 · OH-1004

Extracellular0.018

Rank 5 · LXL04_023061 · 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.

PF01202.29SKI205-290 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_023061	`PF01202.29`	SKI	205	290	4.3e-22	79.7

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
`Q8GY88`	Arabidopsis thaliana	Shikimate kinase 2, chloroplastic	62.353%	Swiss-Prot	weak database homology
`Q7X7H9`	Oryza sativa subsp. japonica	Shikimate kinase 3, chloroplastic	55.914%	Swiss-Prot	weak database homology
`Q5NTH4`	Oryza sativa subsp. japonica	Shikimate kinase 1, chloroplastic	54.839%	Swiss-Prot	weak database homology
`Q5NTH3`	Oryza sativa subsp. japonica	Shikimate kinase 2, chloroplastic	54.839%	Swiss-Prot	weak database homology

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