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Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

LXL04_022354
Reference: OH-1004 Chr: Chr04 Coordinates: 148918278-148921136 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2691 bp · LXL04_022354|LXL04_022354|OH1004|cDNA

ATGAATACACTTCTTACAGGCCGAGGGAAGTTATGCAACAAATCCTCTGATGTTTTTATTATCTGTGAGAGATTCCTATCTTCATATATTGGGGTTTCTCATCTGCAACAAAGATCCCTTTCTTCTACAAGTGGCATCAACGAAGAGCATACTGAAAATATCAATGGAAAAAGGCAATCAGTGGAGGATGTTTGCCAAATCTTGGAGAGTGGGCCATGGGGGACATCTTTAGAGAACGCTTTATCCACATACAATGAAAG...

CDS

Download CDS FASTA

2691 bp · LXL04_022354|LXL04_022354|OH1004|CDS

ATGAATACACTTCTTACAGGCCGAGGGAAGTTATGCAACAAATCCTCTGATGTTTTTATTATCTGTGAGAGATTCCTATCTTCATATATTGGGGTTTCTCATCTGCAACAAAGATCCCTTTCTTCTACAAGTGGCATCAACGAAGAGCATACTGAAAATATCAATGGAAAAAGGCAATCAGTGGAGGATGTTTGCCAAATCTTGGAGAGTGGGCCATGGGGGACATCTTTAGAGAACGCTTTATCCACATACAATGAAAG...

Protein

Download Protein FASTA

896 aa · LXL04_022354|LXL04_022354|OH1004|PROTEIN

MNTLLTGRGKLCNKSSDVFIICERFLSSYIGVSHLQQRSLSSTSGINEEHTENINGKRQSVEDVCQILESGPWGTSLENALSTYNESTQTDFVISVIRKLKDVNLAVNYLQWAKKKTSQPYCPEAYNSLLMVMAKSKKFDQIEQVFEEMNLAGFGPSNTVSVELVLSCVKSHKLKEAYDLIQLMRRFKFRPAFSAYTTLIGALSTINEPDLILALFHQMQELGYEVHVHLFTTVIRVFAREGRVDAALSLLEEMRSNCVD...

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.

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ID Mapping

Input IDLXL04_022354
TK1151 IDTkA05G462030
OH-1004 IDLXL04_022354
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)99.100
Protein coverage (%)TK1151 24.777 / OH-1004 24.777
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 versionOH-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 IDLXL04_022354
LocationChr04:148918278-148921136 (+)
DescriptionSimilar to At3g06920: Pentatricopeptide repeat-containing protein At3g06920
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g06920 Pentatricopeptide repeat-containing protein At3g06920. No verified direct reference in this release
At4g31850 Plays a role in the stabilization of the primary polycistronic transcript of the petL operon encoding subunits of the cytochrome b6-f complex.
PPR motifs of the nucleus-encoded factor, PGR3, function in the selective and distinct steps of chloroplast gene expression in Arabidopsis.2004 · DOI: 10.1111/j.1365-313x.2004.02035.x
At5g59900 Putative pentatricopeptide repeat-containing protein At5g59900. No verified direct reference in this release
At5g61990 Pentatricopeptide repeat-containing protein At5g61990, mitochondrial. No verified direct reference in this release
At1g63130 Pentatricopeptide repeat-containing protein At1g63130, 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_022354 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006412 translation Biological Process
GO:0032544 plastid translation Biological Process
GO:0043489 RNA stabilization Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT3G06920
ath:AT4G31850
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.

Mitochondrion0.810
Rank 1 · LXL04_022354 · OH-1004
Plastid0.117
Rank 2 · LXL04_022354 · OH-1004
Nucleus0.056
Rank 3 · LXL04_022354 · OH-1004
Cytoplasm0.034
Rank 4 · LXL04_022354 · OH-1004
Cell membrane0.012
Rank 5 · LXL04_022354 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF17177.11PPR_long94-256 aa
PF17177.11PPR_long214-310 aa
PF13812.13PPR_3215-275 aa
PF12854.14PPR_1224-255 aa
PF01535.27PPR231-257 aa
PF17177.11PPR_long242-360 aa
PF13041.13PPR_2262-310 aa
PF12854.14PPR_1262-290 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_022354PF17177.11PPR_long942562.4e-49168.3
LXL04_022354PF17177.11PPR_long2143102.4e-49168.3
LXL04_022354PF13812.13PPR_32152757.2e-85279.8
LXL04_022354PF12854.14PPR_12242555.4e-148481.0
LXL04_022354PF01535.27PPR2312573.1e-136435.2
LXL04_022354PF17177.11PPR_long2423602.4e-49168.3
LXL04_022354PF13041.13PPR_22623104.7e-178578.0
LXL04_022354PF12854.14PPR_12622905.4e-148481.0
LXL04_022354PF01535.27PPR2642943.1e-136435.2
LXL04_022354PF23276.3TPR_242663565.4e-43146.8
LXL04_022354PF13812.13PPR_32863447.2e-85279.8
LXL04_022354PF12854.14PPR_12933245.4e-148481.0
LXL04_022354PF13041.13PPR_22993274.7e-178578.0
LXL04_022354PF01535.27PPR2993253.1e-136435.2
LXL04_022354PF17177.11PPR_long3104352.4e-49168.3
LXL04_022354PF13041.13PPR_23313644.7e-178578.0

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

ProteinOrganismDescriptionIdentityDatabaseConfidence
Q9M907Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g0692067.791%Swiss-Protstrong database homology
Q9SZ52Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g31850, chloroplastic30.385%Swiss-Protmoderate database homology
Q9FJE6Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At5g5990026.776%Swiss-Protweak database homology
Q9FIT7Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g61990, mitochondrial26.791%Swiss-Protweak database homology
Q9CAN0Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g63130, mitochondrial28.545%Swiss-Protweak database homology

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