LXL04_001217 | RubberDandelionOmics

Gene overview

LXL04_001217

Reference: OH-1004 Chr: Chr01 Coordinates: 22110557-22112444 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1018 bp · LXL04_001217|LXL04_001217|OH1004|cDNA

ATGGGCGACATTTCTTGCTCCAATGGCAACGGTAACGGTAACAGCAATGGCAATGGCAATGTCTATTCTCAGAGGAAAAGCTGCTGGTACGAGGAAGAGATCGAAGAGAACTTACGATGGTGTTTTGCTCTCAACAGTATACTTCACACCGGAGCCACTCAATTCCAAGATATTCAGCTTTTGGACACTAAACCCTTCGGGAAGGCTCTTGTAATCGATGGAAAGTTGCAAAGTGCGGAGATAGATGAGTTCATCTACCA...

CDS

Download CDS FASTA

1014 bp · LXL04_001217|LXL04_001217|OH1004|CDS

ATGGGCGACATTTCTTGCTCCAATGGCAACGGTAACGGTAACAGCAATGGCAATGGCAATGTCTATTCTCAGAGGAAAAGCTGCTGGTACGAGGAAGAGATCGAAGAGAACTTACGATGGTGTTTTGCTCTCAACAGTATACTTCACACCGGAGCCACTCAATTCCAAGATATTCAGCTTTTGGACACTAAACCCTTCGGGAAGGCTCTTGTAATCGATGGAAAGTTGCAAAGTGCGGAGATAGATGAGTTCATCTACCA...

Protein

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337 aa · LXL04_001217|LXL04_001217|OH1004|PROTEIN

MGDISCSNGNGNGNSNGNGNVYSQRKSCWYEEEIEENLRWCFALNSILHTGATQFQDIQLLDTKPFGKALVIDGKLQSAEIDEFIYHESLVHPALIHHSNPKTIFVMGGGEGSTARELLRHKTVNKVVMCDIDEEVVEFCKSYLAVNSDAFCDPRLELIINDARLNTAELEKREDKYDVIIGDLADPLEGGPCYQLYTKTFYELTVKPKLKEGGIFVTQAGPAGVFSHTEVFTCIFNTLKQVFKYVVPYSAHIPSYADIW...

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_001217`
TK1151 ID	TkA01G554330
OH-1004 ID	LXL04_001217
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.100
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_001217

Location Chr01:22110557-22112444 (+)

Description Similar to ACL5: Thermospermine synthase ACAULIS5

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g19530`	Required for correct xylem specification through regulation of the lifetime of the xylem elements.	ACAULIS5, an Arabidopsis gene required for stem elongation, encodes a spermine synthase.2000 · DOI: 10.1093/emboj/19.16.4248 ACAULIS5 controls Arabidopsis xylem specification through the prevention of premature cell death.2008 · DOI: 10.1242/dev.019349 Thermospermine is required for stem elongation in Arabidopsis thaliana.2008 · DOI: 10.1093/pcp/pcn109

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_001217 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006596 polyamine biosynthetic process Biological Process

GO:0008295 spermidine biosynthetic process Biological Process

GO:0009926 auxin polar transport Biological Process

GO:0010087 phloem or xylem histogenesis Biological Process

GO:0048759 xylem vessel member cell differentiation Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0004766 spermidine synthase activity Molecular Function

GO:0010487 thermospermine synthase activity Molecular Function

GO:0016768 spermine synthase activity Molecular Function

GO:0050314 sym-norspermidine synthase activity Molecular Function

KEGG gene cross-reference

ape:APE_0767.1

ath:AT5G19530

hbu:Hbut_0383

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.

Cytoplasm0.692

Rank 1 · LXL04_001217 · OH-1004

Nucleus0.522

Rank 2 · LXL04_001217 · OH-1004

Mitochondrion0.073

Rank 3 · LXL04_001217 · OH-1004

Cell membrane0.046

Rank 4 · LXL04_001217 · OH-1004

Endoplasmic reticulum0.033

Rank 5 · LXL04_001217 · 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_N29-80 aa

PF01564.24Spermine_synth83-266 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_001217	`PF17284.8`	Spermine_synt_N	29	80	3.1e-13	50.1
LXL04_001217	`PF01564.24`	Spermine_synth	83	266	4e-45	154.4

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
`Q9S7X6`	Arabidopsis thaliana	Thermospermine synthase ACL5	61.976%	Swiss-Prot	strong database homology

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