LXL04_009688 | RubberDandelionOmics

Gene overview

LXL04_009688

Reference: OH-1004 Chr: Chr02 Coordinates: 131253824-131255394 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1371 bp · LXL04_009688|LXL04_009688|OH1004|cDNA

ATGGCTATGACTGGCGGTGGTCTTAAACTGGTGTTGCCGCCGTGCTTTCACCACCGTCGTAAGACTACATTACGGGTTGAGCAACCGACGAAGGTTTCGATTTGTGCAGCACTGAGTAAACAAGGTCACCGGTTCTTTACATCAGTCGCCACCACCGACGACCCGGCCACCGCCTCTCGGCTGATTCGGAAATTCGTAGCTTCATCCTCTAAATCCGTAGCTCTTGACGCCATCGCTCACCTCGTTTCTCCAGTAAACAC...

CDS

Download CDS FASTA

1371 bp · LXL04_009688|LXL04_009688|OH1004|CDS

ATGGCTATGACTGGCGGTGGTCTTAAACTGGTGTTGCCGCCGTGCTTTCACCACCGTCGTAAGACTACATTACGGGTTGAGCAACCGACGAAGGTTTCGATTTGTGCAGCACTGAGTAAACAAGGTCACCGGTTCTTTACATCAGTCGCCACCACCGACGACCCGGCCACCGCCTCTCGGCTGATTCGGAAATTCGTAGCTTCATCCTCTAAATCCGTAGCTCTTGACGCCATCGCTCACCTCGTTTCTCCAGTAAACAC...

Protein

Download Protein FASTA

456 aa · LXL04_009688|LXL04_009688|OH1004|PROTEIN

MAMTGGGLKLVLPPCFHHRRKTTLRVEQPTKVSICAALSKQGHRFFTSVATTDDPATASRLIRKFVASSSKSVALDAIAHLVSPVNTFTRLSPLAFSLYYEINKASWFNWNAKLISDVIASLHKHQRFNEAHTLILEVETKLGSKERDICNFYCNLMDSHSKHQSKQGILESYERIKQIPSHSSSIYLQKRSYESIIGCLSTIDLPNEAETLMVEMKNKGLKASIFEYRSISYAYGRLGLFEEMKRVIGLMEKEGFKLDV...

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_009688`
TK1151 ID	TkA03G462490
OH-1004 ID	LXL04_009688
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	97.400
Protein coverage (%)	TK1151 99.561 / OH-1004 99.561 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_009688

Location Chr02:131253824-131255394 (-)

Description Similar to At2g17033: Pentatricopeptide repeat-containing protein At2g17033

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g17033`	Pentatricopeptide repeat-containing protein At2g17033.	No verified direct reference in this release
`At2g31400`	Involved in nuclear gene expression via the retrograde plastid-to-nucleus signaling.	Signals from chloroplasts converge to regulate nuclear gene expression.2007 · PMID: 17395793 Plastid signals that affect photomorphogenesis in Arabidopsis thaliana are dependent on GENOMES UNCOUPLED 1 and cryptochrome 1.2009 · DOI: 10.1111/j.1469-8137.2008.02729.x The Arabidopsis plastid-signalling mutant gun1 (genomes uncoupled1) shows altered sensitivity to sucrose and abscisic acid and alterations in early seedling development.2010 · DOI: 10.1093/jxb/erq186 Timing the switch to phototrophic growth: a possible role of GUN1.2011 · DOI: 10.4161/psb.6.4.14900
`At1g18900`	Pentatricopeptide repeat-containing protein At1g18900.	No verified direct reference in this release
`At1g74750`	Pentatricopeptide repeat-containing protein At1g74750.	No verified direct reference in this release
`At5g12100`	Pentatricopeptide repeat-containing protein At5g12100, mitochondrial.	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_009688 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0010019 chloroplast-nucleus signaling pathway Biological Process

GO:0031930 mitochondria-nucleus signaling pathway Biological Process

GO:0005739 mitochondrion Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0003677 DNA binding Molecular Function

GO:0003729 mRNA binding Molecular Function

GO:0008270 zinc ion binding Molecular Function

KEGG gene cross-reference

ath:AT1G18900

ath:AT1G74750

ath:AT2G17033

ath:AT2G31400

ath:AT5G12100

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Mitochondrion0.727

Rank 1 · LXL04_009688 · OH-1004

Plastid0.169

Rank 2 · LXL04_009688 · OH-1004

Nucleus0.080

Rank 3 · LXL04_009688 · OH-1004

Cytoplasm0.038

Rank 4 · LXL04_009688 · OH-1004

Cell membrane0.010

Rank 5 · LXL04_009688 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q8GWA9`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At2g17033	48.804%	Swiss-Prot	moderate database homology
`Q9SIC9`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein GUN1, chloroplastic	20.200%	Swiss-Prot	weak database homology
`Q8GYP6`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At1g18900	21.814%	Swiss-Prot	weak database homology
`Q9SSF9`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At1g74750	20.723%	Swiss-Prot	weak database homology
`Q9FMQ1`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At5g12100, mitochondrial	30.201%	Swiss-Prot	weak database homology

JBrowse

View in Genome Browser

Gene Card