LXL04_021494 | RubberDandelionOmics

Gene overview

LXL04_021494

Reference: OH-1004 Chr: Chr04 Coordinates: 131182168-131185648 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1797 bp · LXL04_021494|LXL04_021494|OH1004|cDNA

ATGAAGCCGACTGCATGGGAAGACGCTGCCATCGTCAAGGGAAGAAAGACGCTATTCCTCCTCCGGCAGTATCTCAAATCCAAGGGCGCATCAGAACCAATGGGGTGGGCAAGATTTGCAAGTACCTGGATCTGGATCTGGAACTGGTGGGAACCGGCGGttctggaactggaactggtccaaccggttccggttccaaatccGAAAATCTGGGATCTGGTAGgaccggttccggttccaaatccTAAAATCTGGGATCT...

CDS

Download CDS FASTA

1797 bp · LXL04_021494|LXL04_021494|OH1004|CDS

ATGAAGCCGACTGCATGGGAAGACGCTGCCATCGTCAAGGGAAGAAAGACGCTATTCCTCCTCCGGCAGTATCTCAAATCCAAGGGCGCATCAGAACCAATGGGGTGGGCAAGATTTGCAAGTACCTGGATCTGGATCTGGAACTGGTGGGAACCGGCGGTTCTGGAACTGGAACTGGTCCAACCGGTTCCGGTTCCAAATCCGAAAATCTGGGATCTGGTAGGACCGGTTCCGGTTCCAAATCCTAAAATCTGGGATCT...

Protein

Download Protein FASTA

598 aa · LXL04_021494|LXL04_021494|OH1004|PROTEIN

MKPTAWEDAAIVKGRKTLFLLRQYLKSKGASEPMGWARFASTWIWIWNWWEPAVLELELVQPVPVPNPKIWDLVGPVPVPNPKIWDLVPAGYLFQFRPVPTKSDQFQFRPVPVPDPKTRDPPVPIPVPDPEKKTNFVSPPDYRLQSQYFPAMRTGSMSPSPIAHRSMPSSLCRAEKPSVTATFLYSRSVFPLSTSLSLPSPCHSKVLFATPDADVSSETGVWAMQDFYTLRKEVEATSSRVEEIRASAGLEQLAEELTKL...

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_021494`
TK1151 ID	TkA05G400410
OH-1004 ID	LXL04_021494
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 20.736 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_021494

Location Chr04:131182168-131185648 (-)

Description Similar to PRFB1: Peptide chain release factor PrfB1, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g36170`	Directs the termination of translation in response to the peptide chain termination codon UGA.	A peptide chain release factor 2 affects the stability of UGA-containing transcripts in Arabidopsis chloroplasts.2002 · DOI: 10.1105/tpc.006809

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_021494 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006396 RNA processing Biological Process

GO:0006415 translational termination Biological Process

GO:0009657 plastid organization Biological Process

GO:0075523 viral translational frameshifting Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0016149 translation release factor activity, codon specific Molecular Function

KEGG gene cross-reference

aae:aq_1840

ath:AT5G36170

cyp:PCC8801_3422

syn:sll1865

syw:SYNW2311

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.

Plastid0.943

Rank 1 · LXL04_021494 · OH-1004

Mitochondrion0.076

Rank 2 · LXL04_021494 · OH-1004

Cytoplasm0.037

Rank 3 · LXL04_021494 · OH-1004

Nucleus0.037

Rank 4 · LXL04_021494 · OH-1004

Peroxisome0.019

Rank 5 · LXL04_021494 · 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.

PF03462.24PCRF254-445 aa

PF00472.27RF-1456-564 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_021494	`PF03462.24`	PCRF	254	445	1.4e-49	169.3
LXL04_021494	`PF00472.27`	RF-1	456	564	7.4e-35	120.1

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
`Q9LVY0`	Arabidopsis thaliana	Peptide chain release factor PrfB1, chloroplastic	75.949%	Swiss-Prot	moderate database homology

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