LXL04_038854 | RubberDandelionOmics

Gene overview

LXL04_038854

Reference: OH-1004 Chr: Chr09 Coordinates: 52000583-52006478 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3174 bp · LXL04_038854|LXL04_038854|OH1004|cDNA

ATGAGCCACTCGTCTTCGAAGAGCACATCGCTTCTACAAAGAGAAAAGAGACTTGATTTTGAAGAAGCTGACATGGCTCTTCTAAGCTCTATGTCCTTAGATATGGCCGGCAATGGCGGGGAGAGTGGCACTGGAAAGGCATATAAAACACCATCTTCCATTCTATCTCGATGCCAATCAATTTCCACGCTTTTCCTCTCTTCTTCTAATCCCCAAATTCAACCCACCGATTTCTACACTTCCATCGATAAGCCACAAAA...

CDS

Download CDS FASTA

3174 bp · LXL04_038854|LXL04_038854|OH1004|CDS

ATGAGCCACTCGTCTTCGAAGAGCACATCGCTTCTACAAAGAGAAAAGAGACTTGATTTTGAAGAAGCTGACATGGCTCTTCTAAGCTCTATGTCCTTAGATATGGCCGGCAATGGCGGGGAGAGTGGCACTGGAAAGGCATATAAAACACCATCTTCCATTCTATCTCGATGCCAATCAATTTCCACGCTTTTCCTCTCTTCTTCTAATCCCCAAATTCAACCCACCGATTTCTACACTTCCATCGATAAGCCACAAAA...

Protein

Download Protein FASTA

1057 aa · LXL04_038854|LXL04_038854|OH1004|PROTEIN

MSHSSSKSTSLLQREKRLDFEEADMALLSSMSLDMAGNGGESGTGKAYKTPSSILSRCQSISTLFLSSSNPQIQPTDFYTSIDKPQNHASESEFLSKNASLLSNKRLNFSCGSSLNKTWLLFSTQAAVEPSTSDKLTVDGIVANQWTILDESESDWKSHASAIAQSIGLIKKRLQWEKLKVRLEMLSFQIEKPDLWDDPVHAGKISREHGSLMGKMKEVNGLEQELLEHIDMIKLAREEDDPDLESVETSFPILAESLKA...

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_038854`
TK1151 ID	TkA04G471660
OH-1004 ID	LXL04_038854
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	99.600
Protein coverage (%)	TK1151 95.050 / OH-1004 45.412 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_038854

Location Chr09:52000583-52006478 (-)

Description Similar to PRFB2: Peptide chain release factor PrfB2, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g56350`	Directs the termination of translation in response to the peptide chain termination codon UGA.	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_038854 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009699 phenylpropanoid biosynthetic process Biological Process

GO:0051762 sesquiterpene biosynthetic process Biological Process

GO:0009507 chloroplast Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0016020 membrane Cellular Component

GO:0004497 monooxygenase activity Molecular Function

GO:0005506 iron ion binding Molecular Function

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

GO:0016705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen Molecular Function

GO:0020037 heme binding Molecular Function

KEGG gene cross-reference

ag:ABS00393

ath:AT1G56350

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.

Plastid0.783

Rank 1 · LXL04_038854 · OH-1004

Mitochondrion0.229

Rank 2 · LXL04_038854 · OH-1004

Cytoplasm0.031

Rank 3 · LXL04_038854 · OH-1004

Nucleus0.025

Rank 4 · LXL04_038854 · OH-1004

Peroxisome0.018

Rank 5 · LXL04_038854 · 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.

PF03462.24PCRF180-378 aa

PF00472.27RF-1390-497 aa

PF00067.28p450588-1032 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_038854	`PF03462.24`	PCRF	180	378	7.7e-49	166.9
LXL04_038854	`PF00472.27`	RF-1	390	497	6e-36	123.6
LXL04_038854	`PF00067.28`	p450	588	1032	9.1e-102	341.9

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
`F4I532`	Arabidopsis thaliana	Peptide chain release factor PrfB2, chloroplastic	72.196%	Swiss-Prot	weak database homology

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