LXL04_027446 | RubberDandelionOmics

Gene overview

LXL04_027446

Reference: OH-1004 Chr: Chr06 Coordinates: 16166332-16167292 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

660 bp · LXL04_027446|LXL04_027446|OH1004|cDNA

ATGTTCATCTCTCCCAGATTTCGCCTTGTTCTAATTAGGTTTCTCTCTCTGGTCGGTATCTTAGGTTTAgctctcttcttcttttcaaTTTCCATGGATGCTCAAGTCGGTGAAACGGCACAGCAGCCGAAAAAGGATGCTTATTCGGTGTGGGCGATTTCGTCGGAAGACGTGACGGAGAGGATGAAGAAATTGATGGTCGGCCTGCGATCGGAGTTCGGAGGGCCAGAATTTGAGCCGCATGTGACTGTTGTTGGAGC...

CDS

Download CDS FASTA

660 bp · LXL04_027446|LXL04_027446|OH1004|CDS

ATGTTCATCTCTCCCAGATTTCGCCTTGTTCTAATTAGGTTTCTCTCTCTGGTCGGTATCTTAGGTTTAGCTCTCTTCTTCTTTTCAATTTCCATGGATGCTCAAGTCGGTGAAACGGCACAGCAGCCGAAAAAGGATGCTTATTCGGTGTGGGCGATTTCGTCGGAAGACGTGACGGAGAGGATGAAGAAATTGATGGTCGGCCTGCGATCGGAGTTCGGAGGGCCAGAATTTGAGCCGCATGTGACTGTTGTTGGAGC...

Protein

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219 aa · LXL04_027446|LXL04_027446|OH1004|PROTEIN

MFISPRFRLVLIRFLSLVGILGLALFFFSISMDAQVGETAQQPKKDAYSVWAISSEDVTERMKKLMVGLRSEFGGPEFEPHVTVVGAITLTEDEARDKLKKACEGLKSFNATVQKVATGTFFYQCVYLLLHPTTEVMETGAHCWNHFGYKPSTPYMPHMSILYGDLSEEEKKRAQDKANVLDETVKSLSFPIVRLALYKTDTEDKTLKSWEKVTEITLQ

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_027446`
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_027446

Location Chr06:16166332-16167292 (+)

Description Similar to At4g18930: Cyclic phosphodiesterase

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g18930`	Hydrolyzes ADP-ribose 1'',2''-cyclic phosphate (Appr>1) that is produced during tRNA splicing into ADP-ribose 1''-phosphate (Appr-1''p).	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_027446 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006388 tRNA splicing, via endonucleolytic cleavage and ligation Biological Process

GO:0009187 cyclic nucleotide metabolic process Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0004112 cyclic-nucleotide phosphodiesterase activity Molecular Function

GO:0004113 2',3'-cyclic-nucleotide 3'-phosphodiesterase activity Molecular Function

KEGG gene cross-reference

ath:AT4G18930

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.

Endoplasmic reticulum0.365

Rank 1 · LXL04_027446 · OH-1004

Cytoplasm0.272

Rank 2 · LXL04_027446 · OH-1004

Mitochondrion0.200

Rank 3 · LXL04_027446 · OH-1004

Cell membrane0.127

Rank 4 · LXL04_027446 · OH-1004

Golgi apparatus0.123

Rank 5 · LXL04_027446 · 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.

PF07823.18CPDase49-210 aa

PF13563.132_5_RNA_ligase279-202 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_027446	`PF07823.18`	CPDase	49	210	2.1e-10	41.4
LXL04_027446	`PF13563.13`	2_5_RNA_ligase2	79	202	1.6e-12	48.5

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.

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Protein	Organism	Description	Identity	Database	Confidence
`O04147`	Arabidopsis thaliana	Cyclic phosphodiesterase	58.101%	Swiss-Prot	strong database homology

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