LXL04_026161 | RubberDandelionOmics

Gene overview

LXL04_026161

Reference: OH-1004 Chr: Chr05 Coordinates: 122026712-122028169 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1458 bp · LXL04_026161|LXL04_026161|OH1004|cDNA

ATGGATGGTGCAGTTCTCTCCTGTTTCTTTTGTAAAGTCTCAGAAACCAATCTTCCTCTTCGGTTTTCAGAATCATGGAAGACTACAATCAAAAGAAACAACCTGGGAATAGTTACGTTCAGTTTAACGAATCCTTCAAGAACCAAAATCCACCTTAGAAAACCAATCAAGAAACTCAACAATCCCGAGAACCCAATCTCTATAGAACTGGATGAAAATGATACAGTCAATATTTCAGATGATGACATGGAAACAGAATC...

CDS

Download CDS FASTA

1458 bp · LXL04_026161|LXL04_026161|OH1004|CDS

ATGGATGGTGCAGTTCTCTCCTGTTTCTTTTGTAAAGTCTCAGAAACCAATCTTCCTCTTCGGTTTTCAGAATCATGGAAGACTACAATCAAAAGAAACAACCTGGGAATAGTTACGTTCAGTTTAACGAATCCTTCAAGAACCAAAATCCACCTTAGAAAACCAATCAAGAAACTCAACAATCCCGAGAACCCAATCTCTATAGAACTGGATGAAAATGATACAGTCAATATTTCAGATGATGACATGGAAACAGAATC...

Protein

Download Protein FASTA

485 aa · LXL04_026161|LXL04_026161|OH1004|PROTEIN

MDGAVLSCFFCKVSETNLPLRFSESWKTTIKRNNLGIVTFSLTNPSRTKIHLRKPIKKLNNPENPISIELDENDTVNISDDDMETESQQEDTNPEWDPEEIETISSLFKQRIPQKPGKKPRERPLPLPIPHKQQPLGLPSSKKFAKTVNTSRKSLSTKLYKNPTFLISLAKQIKNLPPEKDVSTILNTYTRFLRKNSLSITVRELGHMGLPERALQIFCWVQTQPHLSPDDKLLASTVEVLARNHELKLSFKLEKFLSLS...

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_026161`
TK1151 ID	TkA06G023840
OH-1004 ID	LXL04_026161
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 83.093 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_026161

Location Chr05:122026712-122028169 (+)

Description Similar to EMB975: Pentatricopeptide repeat-containing protein At2g01860

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g01860`	Pentatricopeptide repeat-containing protein At2g01860.	No verified direct reference in this release
`At1g74850`	Involved in plastid gene expression.	pTAC2, -6, and -12 are components of the transcriptionally active plastid chromosome that are required for plastid gene expression.2006 · DOI: 10.1105/tpc.105.036392
`At1g79490`	Pentatricopeptide repeat-containing protein At1g79490, mitochondrial.	No verified direct reference in this release
`At2g41720`	Pentatricopeptide repeat-containing protein At2g41720.	No verified direct reference in this release
`At2g18940`	Pentatricopeptide repeat-containing protein At2g18940, chloroplastic.	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_026161 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0008380 RNA splicing Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0010239 chloroplast mRNA processing Biological Process

GO:0042793 plastid transcription Biological Process

GO:0045893 positive regulation of DNA-templated transcription Biological Process

GO:0005739 mitochondrion Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0042644 chloroplast nucleoid Cellular Component

GO:0003729 mRNA binding Molecular Function

GO:0003735 structural constituent of ribosome Molecular Function

KEGG gene cross-reference

ath:AT1G74850

ath:AT1G79490

ath:AT2G01860

ath:AT2G41720

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.

Mitochondrion0.494

Rank 1 · LXL04_026161 · OH-1004

Plastid0.325

Rank 2 · LXL04_026161 · OH-1004

Nucleus0.083

Rank 3 · LXL04_026161 · OH-1004

Cytoplasm0.029

Rank 4 · LXL04_026161 · OH-1004

Cell membrane0.009

Rank 5 · LXL04_026161 · 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
`Q5XET4`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At2g01860	51.875%	Swiss-Prot	strong database homology
`Q9S7Q2`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At1g74850, chloroplastic	21.981%	Swiss-Prot	weak database homology
`Q9SAK0`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At1g79490, mitochondrial	22.944%	Swiss-Prot	weak database homology
`Q8RWS8`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At2g41720	20.401%	Swiss-Prot	weak database homology
`O64624`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At2g18940, chloroplastic	20.070%	Swiss-Prot	weak database homology

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