LXL04_025981 | RubberDandelionOmics

Gene overview

LXL04_025981

Reference: OH-1004 Chr: Chr05 Coordinates: 119357567-119360532 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1446 bp · LXL04_025981|LXL04_025981|OH1004|cDNA

ATGGACGGCGGTGGTGATGTGGCTATGACTCCAGCTGGCTTGGACTGGAAATTCTCTCAGGTTTTTGGTGAACGAGCTGCAGGAGAAGAGGTTCAAGAAGTTGATGTGATTTCAGCAATAGAATTTGATAAAGCTGGCGATCATCTTGCAACTGGAGATCGTGGGGGCCGTGTGGTTTTATTTGAAAGAACTGATCAAACAAATTATGGTGTTCATAGAAGAGTTCTAGAAGGAATGGATTGTTCAAGTAGTCGTCACCC...

CDS

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1446 bp · LXL04_025981|LXL04_025981|OH1004|CDS

ATGGACGGCGGTGGTGATGTGGCTATGACTCCAGCTGGCTTGGACTGGAAATTCTCTCAGGTTTTTGGTGAACGAGCTGCAGGAGAAGAGGTTCAAGAAGTTGATGTGATTTCAGCAATAGAATTTGATAAAGCTGGCGATCATCTTGCAACTGGAGATCGTGGGGGCCGTGTGGTTTTATTTGAAAGAACTGATCAAACAAATTATGGTGTTCATAGAAGAGTTCTAGAAGGAATGGATTGTTCAAGTAGTCGTCACCC...

Protein

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481 aa · LXL04_025981|LXL04_025981|OH1004|PROTEIN

MDGGGDVAMTPAGLDWKFSQVFGERAAGEEVQEVDVISAIEFDKAGDHLATGDRGGRVVLFERTDQTNYGVHRRVLEGMDCSSSRHPEYRYKTEFQSHEPEFDYLKSLEIEEKINKIKWCQTANSSLFLLSTNDKTIKFWKVQEKKIKKICNFNLDPSKQLRNGFICSSNAPTSLRLPMVTSHDTSLLARCRRTFAHAHDYHINSISNNSDGETFISADDLRINLWNLEINSQSFNIVDMKPANMEDLTEVITSADFHPS...

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_025981`
TK1151 ID	TkA06G039100
OH-1004 ID	LXL04_025981
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.800
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_025981

Location Chr05:119357567-119360532 (+)

Description Similar to PP2AB2: Serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g17720`	The B regulatory subunit may modulate substrate selectivity and catalytic activity, and may also direct the localization of the catalytic enzyme to a particular subcellular compartment.	No verified direct reference in this release
`At1g51690`	The B regulatory subunit may modulate substrate selectivity and catalytic activity, and may also direct the localization of the catalytic enzyme to a particular subcellular compartment.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0224200`	The B regulatory subunit may modulate substrate selectivity and catalytic activity, and may also direct the localization of the catalytic enzyme to a particular subcellular compartment.	No verified direct reference in this release
`UniProt: A2X2K3`	The B regulatory subunit may modulate substrate selectivity and catalytic activity, and may also direct the localization of the catalytic enzyme to a particular subcellular compartment.	No verified direct reference in this release
`Os06g0563300`	The B regulatory subunit may modulate substrate selectivity and catalytic activity, and may also direct the localization of the catalytic enzyme to a particular subcellular compartment.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_025981 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006470 protein dephosphorylation Biological Process

GO:0000159 protein phosphatase type 2A complex Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0019888 protein phosphatase regulator activity Molecular Function

KEGG gene cross-reference

ath:AT1G17720

ath:AT1G51690

dosa:Os02g0224200

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.

Nucleus0.752

Rank 1 · LXL04_025981 · OH-1004

Cytoplasm0.263

Rank 2 · LXL04_025981 · OH-1004

Cell membrane0.054

Rank 3 · LXL04_025981 · OH-1004

Lysosome / Vacuole0.044

Rank 4 · LXL04_025981 · OH-1004

Golgi apparatus0.034

Rank 5 · LXL04_025981 · 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.

PF24814.2WD40_Prp19113-338 aa

PF25175.2Beta-prop_WDR5191-284 aa

PF25174.2Beta-prop_THOC3199-284 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025981	`PF24814.2`	WD40_Prp19	113	338	6.1e-12	45.9
LXL04_025981	`PF25175.2`	Beta-prop_WDR5	191	284	5.5e-15	56.1
LXL04_025981	`PF25174.2`	Beta-prop_THOC3	199	284	1.4e-14	54.5

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q39247`	Arabidopsis thaliana	Serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform	72.619%	Swiss-Prot	strong database homology
`Q38821`	Arabidopsis thaliana	Serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform	69.186%	Swiss-Prot	strong database homology
`Q0E2P1`	Oryza sativa subsp. japonica	Serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform	72.545%	Swiss-Prot	strong database homology
`A2X2K3`	Oryza sativa subsp. indica	Serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform	72.545%	Swiss-Prot	strong database homology
`Q5Z8Z7`	Oryza sativa subsp. japonica	Serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform	71.026%	Swiss-Prot	strong database homology

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