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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_013377
Reference: OH-1004 Chr: Chr03 Coordinates: 28827875-28832776 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

3609 bp · LXL04_013377|LXL04_013377|OH1004|cDNA

ATGCTTGTCAGTCTCCAACGAAACACCCTCTTCATAAAGGTAAGTTATATCTTCGCTCTTTTCTCTCTCAAACACCACTGTTCTTCCACATCCTTAAACCGAGAACCACTATCAAACACGCATAAATCAAACAAATCCCACATAGATGCGTCTCCGGTTTACCTTTCTGGTGTTACAAAATCGGTCCTAGATAAATGTTCCGATCTTTTAACTCGAACGACTCAGCCCTCAACCGCTAGTGCTTCTTCTCGTGAAGAACT...

CDS

Download CDS FASTA

3609 bp · LXL04_013377|LXL04_013377|OH1004|CDS

ATGCTTGTCAGTCTCCAACGAAACACCCTCTTCATAAAGGTAAGTTATATCTTCGCTCTTTTCTCTCTCAAACACCACTGTTCTTCCACATCCTTAAACCGAGAACCACTATCAAACACGCATAAATCAAACAAATCCCACATAGATGCGTCTCCGGTTTACCTTTCTGGTGTTACAAAATCGGTCCTAGATAAATGTTCCGATCTTTTAACTCGAACGACTCAGCCCTCAACCGCTAGTGCTTCTTCTCGTGAAGAACT...

Protein

Download Protein FASTA

1202 aa · LXL04_013377|LXL04_013377|OH1004|PROTEIN

MLVSLQRNTLFIKVSYIFALFSLKHHCSSTSLNREPLSNTHKSNKSHIDASPVYLSGVTKSVLDKCSDLLTRTTQPSTASASSREELLLRVHNLNPRITRKLWRKPKLEPQDVLELLLGFESNAGKLGIDVKKVESLLGVFKLASSSTKRSTSFKHLDQSFNIMVGLLVRVKLFKDAESLLLAMDKEGISLDNHEVFSNLIEWHVSINELEKSLTMYERMRRLNLSPSFSRYHTLLNYLVNKSQTQFLFQVYSDMLEMGI...

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_013377
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_013377
LocationChr03:28827875-28832776 (+)
DescriptionSimilar to At5g15280: Pentatricopeptide repeat-containing protein At5g15280, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g15280 Pentatricopeptide repeat-containing protein At5g15280, mitochondrial. No verified direct reference in this release
At5g55840 Pentatricopeptide repeat-containing protein At5g55840. No verified direct reference in this release
At5g59900 Putative pentatricopeptide repeat-containing protein At5g59900. 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
At5g14770 Pentatricopeptide repeat-containing protein At5g14770, 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_013377 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0005737 cytoplasm Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT5G15280
ath:AT5G55840
ath:AT5G59900
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.

Mitochondrion0.815
Rank 1 · LXL04_013377 · OH-1004
Plastid0.087
Rank 2 · LXL04_013377 · OH-1004
Nucleus0.062
Rank 3 · LXL04_013377 · OH-1004
Cytoplasm0.034
Rank 4 · LXL04_013377 · OH-1004
Cell membrane0.012
Rank 5 · LXL04_013377 · 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.

PF13041.13PPR_2328-374 aa
PF17177.11PPR_long379-465 aa
PF13812.13PPR_3388-445 aa
PF13041.13PPR_2401-447 aa
PF13041.13PPR_2593-638 aa
PF01535.27PPR593-621 aa
PF13041.13PPR_2842-887 aa
PF29070.1MSC6_N927-1112 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_013377PF13041.13PPR_23283744.4e-88290.0
LXL04_013377PF17177.11PPR_long3794651.5e-2797.1
LXL04_013377PF13812.13PPR_33884451.8e-30105.5
LXL04_013377PF13041.13PPR_24014474.4e-88290.0
LXL04_013377PF13041.13PPR_25936384.4e-88290.0
LXL04_013377PF01535.27PPR5936211.3e-55182.5
LXL04_013377PF13041.13PPR_28428874.4e-88290.0
LXL04_013377PF29070.1MSC6_N92711124.4e-1866.3
LXL04_013377PF12854.14PPR_197710083.6e-47158.5
LXL04_013377PF13041.13PPR_298010284.4e-88290.0
LXL04_013377PF13041.13PPR_2101510634.4e-88290.0

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
Q9LXF4Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g15280, mitochondrial34.979%Swiss-Protmoderate database homology
Q9LVQ5Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g5584021.320%Swiss-Protweak database homology
Q9FJE6Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At5g5990023.490%Swiss-Protweak database homology
Q9SZ52Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g31850, chloroplastic21.281%Swiss-Protweak database homology
Q9LER0Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g14770, mitochondrial20.944%Swiss-Protweak database homology

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