LXL04_020919 | RubberDandelionOmics

Gene overview

LXL04_020919

Reference: OH-1004 Chr: Chr04 Coordinates: 114979379-114982073 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1068 bp · LXL04_020919|LXL04_020919|OH1004|cDNA

ATGGCTGAACAGACCACTATCGCCGCCGCGACCGATTCGCCGTTGAAGAGACCAAGAGAAGGCGACGACAACGGCGCCGCCGCGTTTGAAACTAATGCCCACATATCATCCGTCATTCCCGGATGGTTTTCAGAGATTAGCCCAATGTGGCCTGGAGAAGCACACTCTTTGAAAGTGGAAAAAATCTTGTTTCAAGGCAAGTCTGACTATCAAGATGTTATGGTATTTCAGTCAGCAACATACGGGAAGGTTCTTGTTTT...

CDS

Download CDS FASTA

1068 bp · LXL04_020919|LXL04_020919|OH1004|CDS

ATGGCTGAACAGACCACTATCGCCGCCGCGACCGATTCGCCGTTGAAGAGACCAAGAGAAGGCGACGACAACGGCGCCGCCGCGTTTGAAACTAATGCCCACATATCATCCGTCATTCCCGGATGGTTTTCAGAGATTAGCCCAATGTGGCCTGGAGAAGCACACTCTTTGAAAGTGGAAAAAATCTTGTTTCAAGGCAAGTCTGACTATCAAGATGTTATGGTATTTCAGTCAGCAACATACGGGAAGGTTCTTGTTTT...

Protein

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355 aa · LXL04_020919|LXL04_020919|OH1004|PROTEIN

MAEQTTIAAATDSPLKRPREGDDNGAAAFETNAHISSVIPGWFSEISPMWPGEAHSLKVEKILFQGKSDYQDVMVFQSATYGKVLVLDGVIQLTERDECAYQEMITHLPLCSIPNPKKVLVVGGGDGGVLREVARHSSIDHIDICEIDKMVVDVSKEFFPDVAVGYDDPRVKLHIGDGVAFLKGAPEGSYDAVIVDSSDPIGPAQELFEKPFFQSVAKALRPGGVVCTQAESIWLHMHIIEDIVSNCRQVFKGSVNYAWT...

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_020919`
TK1151 ID	TkA05G333180
OH-1004 ID	LXL04_020919
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	92.700
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_020919

Location Chr04:114979379-114982073 (+)

Description Similar to SPDSYN1: Spermidine synthase 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g23820`	Spermidine synthase 1.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_020919 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0008295 spermidine biosynthetic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0004766 spermidine synthase activity Molecular Function

KEGG gene cross-reference

ath:AT1G23820

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.

Cytoplasm0.689

Rank 1 · LXL04_020919 · OH-1004

Nucleus0.472

Rank 2 · LXL04_020919 · OH-1004

Mitochondrion0.087

Rank 3 · LXL04_020919 · OH-1004

Peroxisome0.052

Rank 4 · LXL04_020919 · OH-1004

Cell membrane0.042

Rank 5 · LXL04_020919 · 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.

PF17284.8Spermine_synt_N41-95 aa

PF01564.24Spermine_synth98-271 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_020919	`PF17284.8`	Spermine_synt_N	41	95	7.8e-25	87.2
LXL04_020919	`PF01564.24`	Spermine_synth	98	271	1e-74	250.8

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
`Q9ZUB3`	Arabidopsis thaliana	Spermidine synthase 1	78.754%	Swiss-Prot	strong database homology

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