LXL04_025630 | RubberDandelionOmics

Gene overview

LXL04_025630

Reference: OH-1004 Chr: Chr05 Coordinates: 114490790-114493947 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2268 bp · LXL04_025630|LXL04_025630|OH1004|cDNA

ATGGAGAGATCTGGTAGTAAAGACTTGAACAGCATCATTGGCGCTTCCTTATCAGATGACAAGCGCTTTGATGCATCACAGTACGCTTTTTTCGGTCAAACCCTTTCAGACAAGGCTGATTTCGGGTGTTTAGAagttgaagaagaagatgatatACCTTTAAATGGACTAGGTGATGACGAATATCGTTTGTTTAATAGAGAAGAGGAACCCGGTGTTGGTTCCCTATCCGATTTAGATGATCTGTCAACTACATTTTC...

CDS

Download CDS FASTA

2268 bp · LXL04_025630|LXL04_025630|OH1004|CDS

ATGGAGAGATCTGGTAGTAAAGACTTGAACAGCATCATTGGCGCTTCCTTATCAGATGACAAGCGCTTTGATGCATCACAGTACGCTTTTTTCGGTCAAACCCTTTCAGACAAGGCTGATTTCGGGTGTTTAGAAGTTGAAGAAGAAGATGATATACCTTTAAATGGACTAGGTGATGACGAATATCGTTTGTTTAATAGAGAAGAGGAACCCGGTGTTGGTTCCCTATCCGATTTAGATGATCTGTCAACTACATTTTC...

Protein

Download Protein FASTA

755 aa · LXL04_025630|LXL04_025630|OH1004|PROTEIN

MERSGSKDLNSIIGASLSDDKRFDASQYAFFGQTLSDKADFGCLEVEEEDDIPLNGLGDDEYRLFNREEEPGVGSLSDLDDLSTTFSKLNRSVSGPRHPGIIGDRGSGSGSISRESSSASEWLQERELPEYFDQHFSDTETHHGTRRWSSQPHLYSDTKPLYRASSYPQEPQTQFFSEPVLVPPPGPTQTNLPSPRQHPQSHLLNLSSAITNPHLNLSRYGNHSQLIPPGLSRYAQAQAQAQNNWANHMLHVDHAGLLSN...

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_025630`
TK1151 ID	TkA06G048180
OH-1004 ID	LXL04_025630
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.500
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_025630

Location Chr05:114490790-114493947 (-)

Description Similar to PAT1H1: Protein PAT1 homolog 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g22270`	Activator of mRNA decapping.	Topoisomerase II-associated protein PAT1H1 is involved in the root stem cell niche maintenance in Arabidopsis thaliana.2016 · DOI: 10.1007/s00299-016-1961-7
`At4g14990`	Activator of mRNA decapping.	No verified direct reference in this release
`At1g79090`	Activator of mRNA decapping.	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_025630 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000290 deadenylation-dependent decapping of nuclear-transcribed mRNA Biological Process

GO:0006397 mRNA processing Biological Process

GO:0017148 negative regulation of translation Biological Process

GO:0019827 stem cell population maintenance Biological Process

GO:0033962 P-body assembly Biological Process

GO:0045087 innate immune response Biological Process

GO:0051301 cell division Biological Process

GO:0000932 P-body Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005829 cytosol Cellular Component

KEGG gene cross-reference

ath:AT1G79090

ath:AT3G22270

ath:AT4G14990

dre:100009659

mmu:225929

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.

Cytoplasm0.497

Rank 1 · LXL04_025630 · OH-1004

Nucleus0.454

Rank 2 · LXL04_025630 · OH-1004

Cell membrane0.073

Rank 3 · LXL04_025630 · OH-1004

Lysosome / Vacuole0.069

Rank 4 · LXL04_025630 · OH-1004

Golgi apparatus0.060

Rank 5 · LXL04_025630 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

No result was found for this query.

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
`F4J077`	Arabidopsis thaliana	Protein PAT1 homolog 1	48.284%	Swiss-Prot	moderate database homology
`Q94C98`	Arabidopsis thaliana	Protein PAT1 homolog 2	45.255%	Swiss-Prot	moderate database homology
`Q0WPK4`	Arabidopsis thaliana	Protein PAT1 homolog	43.216%	Swiss-Prot	moderate database homology

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