LXL04_023874 | RubberDandelionOmics

Gene overview

LXL04_023874

Reference: OH-1004 Chr: Chr05 Coordinates: 72102780-72104610 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1539 bp · LXL04_023874|LXL04_023874|OH1004|cDNA

ATGATCAACAAGATCTTTAATCGGTCTTCTTCTAGAAAGCCAAAATCAAACGATAAAGATCAAGGAAACCCTAATTCATCTTCAAACACATCCACAAGTTCAAGAcctaacaacaacaacaatgatcaAAACCCTAATCGATTCGCGAATTCAAACCCCCCACCCCCAAATCAACCCTCAAAAAAACCAAACGGAACTTCATACGAACCCCTCCCATCTTTCAAAGACGTCACAAACTCGGAAAAACAAAACCTTTTCAT...

CDS

Download CDS FASTA

1539 bp · LXL04_023874|LXL04_023874|OH1004|CDS

ATGATCAACAAGATCTTTAATCGGTCTTCTTCTAGAAAGCCAAAATCAAACGATAAAGATCAAGGAAACCCTAATTCATCTTCAAACACATCCACAAGTTCAAGACCTAACAACAACAACAATGATCAAAACCCTAATCGATTCGCGAATTCAAACCCCCCACCCCCAAATCAACCCTCAAAAAAACCAAACGGAACTTCATACGAACCCCTCCCATCTTTCAAAGACGTCACAAACTCGGAAAAACAAAACCTTTTCAT...

Protein

Download Protein FASTA

512 aa · LXL04_023874|LXL04_023874|OH1004|PROTEIN

MINKIFNRSSSRKPKSNDKDQGNPNSSSNTSTSSRPNNNNNDQNPNRFANSNPPPPNQPSKKPNGTSYEPLPSFKDVTNSEKQNLFIRKLKLCSIVFDFTDPTKNTKEKEIKRQTLVELVDYISSASGKFPETVMQEIVNMVSVNIFRRLTPQPRDNKILETFDGDEEEPSMDPSWPHLQLIYEFILRFVASPETDPKLAKRYIDHAFVLKWLDLFDSEDPREREYLKFVLHRMYGKFMVHRPFIRKSINNIFFRFVFET...

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_023874`
TK1151 ID	TkA06G202420
OH-1004 ID	LXL04_023874
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.600
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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_023874

Location Chr05:72102780-72104610 (+)

Description Similar to B'ETA: Serine/threonine protein phosphatase 2A 59 kDa regulatory subunit B' eta isoform

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g26020`	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 (By similarity).	No verified direct reference in this release
`At1g13460`	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 (By similarity).	No verified direct reference in this release
`At4g15415`	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 (By similarity).	Regulatory subunit B'gamma of protein phosphatase 2A prevents unnecessary defense reactions under low light in Arabidopsis.2011 · DOI: 10.1104/pp.111.178442
`At3g21650`	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 (By similarity).	No verified direct reference in this release
`At3g09880`	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 (By similarity).	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_023874 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000398 mRNA splicing, via spliceosome Biological Process

GO:0006555 methionine metabolic process Biological Process

GO:0006952 defense response Biological Process

GO:0009554 megasporogenesis Biological Process

GO:0009556 microsporogenesis Biological Process

GO:0009742 brassinosteroid mediated signaling pathway Biological Process

GO:0009759 indole glucosinolate biosynthetic process Biological Process

GO:0009908 flower development Biological Process

GO:0010090 trichome morphogenesis Biological Process

GO:0010150 leaf senescence Biological Process

GO:0031348 negative regulation of defense response Biological Process

GO:0032000 positive regulation of fatty acid beta-oxidation Biological Process

KEGG gene cross-reference

ath:AT1G13460

ath:AT3G09880

ath:AT3G21650

ath:AT3G26020

ath:AT4G15415

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.

View expression for this gene

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.

Cytoplasm0.620

Rank 1 · LXL04_023874 · OH-1004

Nucleus0.317

Rank 2 · LXL04_023874 · OH-1004

Cell membrane0.135

Rank 3 · LXL04_023874 · OH-1004

Lysosome / Vacuole0.092

Rank 4 · LXL04_023874 · OH-1004

Golgi apparatus0.084

Rank 5 · LXL04_023874 · 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.

PF01603.27B5671-482 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_023874	`PF01603.27`	B56	71	482	3.7e-189	629.6

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
`Q9LU89`	Arabidopsis thaliana	Serine/threonine protein phosphatase 2A 59 kDa regulatory subunit B' eta isoform	80.142%	Swiss-Prot	strong database homology
`Q8LF36`	Arabidopsis thaliana	Serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform	74.945%	Swiss-Prot	strong database homology
`Q8RW96`	Arabidopsis thaliana	Serine/threonine protein phosphatase 2A 59 kDa regulatory subunit B' gamma isoform	65.873%	Swiss-Prot	strong database homology
`Q9LVE2`	Arabidopsis thaliana	Serine/threonine protein phosphatase 2A 59 kDa regulatory subunit B' zeta isoform	66.874%	Swiss-Prot	strong database homology
`O04376`	Arabidopsis thaliana	Serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform	62.602%	Swiss-Prot	strong database homology

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