LXL04_030314 | RubberDandelionOmics

Gene overview

LXL04_030314

Reference: OH-1004 Chr: Chr06 Coordinates: 114130606-114136948 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3123 bp · LXL04_030314|LXL04_030314|OH1004|cDNA

TGCCAGATGGCAAGGAATGAGTGGATCAACGGCTACTTGGAAGCAATATTGGATGTGGGAGCAAATATACAGAGCCAAAAAGGGGTGGATACGAAGATGAAGATAGAAAAGCTTCAAGACAACGTGAAGCGTGATAAACACTTCAATCCCACTAATTACTTTGTTGAAGAAGTTGTAAATAGTGTTGATGAATCTGACCTCCATCGAACCTGGGTCAAGGTTATTGCGACTAGGAACACTCGTGAAAGAAGCGGTAGGCT...

CDS

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3117 bp · LXL04_030314|LXL04_030314|OH1004|CDS

ATGGCAAGGAATGAGTGGATCAACGGCTACTTGGAAGCAATATTGGATGTGGGAGCAAATATACAGAGCCAAAAAGGGGTGGATACGAAGATGAAGATAGAAAAGCTTCAAGACAACGTGAAGCGTGATAAACACTTCAATCCCACTAATTACTTTGTTGAAGAAGTTGTAAATAGTGTTGATGAATCTGACCTCCATCGAACCTGGGTCAAGGTTATTGCGACTAGGAACACTCGTGAAAGAAGCGGTAGGCTTGAGAA...

Protein

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1038 aa · LXL04_030314|LXL04_030314|OH1004|PROTEIN

MARNEWINGYLEAILDVGANIQSQKGVDTKMKIEKLQDNVKRDKHFNPTNYFVEEVVNSVDESDLHRTWVKVIATRNTRERSGRLENMCWRIWHLTRKKKQIALEGTQKLTHRRIEREKGRNDAEEDLLELSDGEKEKSEVVQVSKISRINSEMQIWTDVKQSRQIYIVLISIHGLVRGENMELGRDSDTGGQVKYVVELAKALADMEGVIRVDLLTRQIACPDVDYGYAEPIEMLSCPPEGSGNCGAYIVRIPCGPRDK...

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_030314`
TK1151 ID	TkA07G396780
OH-1004 ID	LXL04_030314
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	97.800
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	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_030314

Location Chr06:114130606-114136948 (+)

Description Similar to SPS4: Probable sucrose-phosphate synthase 4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g10120`	Plays a role in photosynthetic sucrose synthesis by catalyzing the rate-limiting step of sucrose biosynthesis from UDP-glucose and fructose- 6-phosphate (By similarity).	No verified direct reference in this release
`At1g04920`	Plays a role in photosynthetic sucrose synthesis by catalyzing the rate-limiting step of sucrose biosynthesis from UDP-glucose and fructose- 6-phosphate.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0919400`	Plays a role in photosynthetic sucrose synthesis by catalyzing the rate-limiting step of sucrose biosynthesis from UDP-glucose and fructose- 6-phosphate.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_030314 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0005986 sucrose biosynthetic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0046524 sucrose-phosphate synthase activity Molecular Function

KEGG gene cross-reference

ath:AT1G04920

ath:AT4G10120

dosa:Os01g0919400

osa:4324364

zma:542711

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.

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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.

Cytoplasm0.399

Rank 1 · LXL04_030314 · OH-1004

Nucleus0.302

Rank 2 · LXL04_030314 · OH-1004

Cell membrane0.130

Rank 3 · LXL04_030314 · OH-1004

Mitochondrion0.101

Rank 4 · LXL04_030314 · OH-1004

Plastid0.078

Rank 5 · LXL04_030314 · 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.

PF13579.13Glyco_trans_4_4191-384 aa

PF00862.27GT-B_Sucrose_synth258-427 aa

PF00534.27Glycos_transf_1469-664 aa

PF13692.13Glyco_trans_1_4473-653 aa

PF05116.20S6PP797-971 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_030314	`PF13579.13`	Glyco_trans_4_4	191	384	4.4e-07	31.1
LXL04_030314	`PF00862.27`	GT-B_Sucrose_synth	258	427	9.8e-12	45.0
LXL04_030314	`PF00534.27`	Glycos_transf_1	469	664	1.5e-19	70.9
LXL04_030314	`PF13692.13`	Glyco_trans_1_4	473	653	8.7e-12	46.2
LXL04_030314	`PF05116.20`	S6PP	797	971	1.1e-20	75.0

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
`F4JLK2`	Arabidopsis thaliana	Sucrose-phosphate synthase 4	67.235%	Swiss-Prot	strong database homology
`Q8RY24`	Arabidopsis thaliana	Probable sucrose-phosphate synthase 3	55.858%	Swiss-Prot	strong database homology
`Q0JGK4`	Oryza sativa subsp. japonica	Probable sucrose-phosphate synthase 1	54.521%	Swiss-Prot	strong database homology

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