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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_005382
Reference: OH-1004 Chr: Chr01 Coordinates: 162335286-162339950 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2679 bp · LXL04_005382|LXL04_005382|OH1004|cDNA

ATGAGACGCCTTTCTGCTCTTGCTTCTAGGGTTGAACAAATCCCAAATCAAATTACACACAAGTCACTAAATCAACCAAAGCTCGAATCCAGTTCTTCATCCCACCACCAAAACCCTCCAGTCACCACCACTAATTTCACCGCAAGAGGTAAGTTTTCTTCACTTAACTCTCAATCGAAAACCCCCACTCATAAACCCATTGATCATCACTACATTTCCCAGATTCTTTCAAGAAAAGACTGGTACTTGCTTCTAAACCA...

CDS

Download CDS FASTA

2679 bp · LXL04_005382|LXL04_005382|OH1004|CDS

ATGAGACGCCTTTCTGCTCTTGCTTCTAGGGTTGAACAAATCCCAAATCAAATTACACACAAGTCACTAAATCAACCAAAGCTCGAATCCAGTTCTTCATCCCACCACCAAAACCCTCCAGTCACCACCACTAATTTCACCGCAAGAGGTAAGTTTTCTTCACTTAACTCTCAATCGAAAACCCCCACTCATAAACCCATTGATCATCACTACATTTCCCAGATTCTTTCAAGAAAAGACTGGTACTTGCTTCTAAACCA...

Protein

Download Protein FASTA

892 aa · LXL04_005382|LXL04_005382|OH1004|PROTEIN

MRRLSALASRVEQIPNQITHKSLNQPKLESSSSSHHQNPPVTTTNFTARGKFSSLNSQSKTPTHKPIDHHYISQILSRKDWYLLLNHDLKSKKLSLNPRIIVSVLQNQENPLHNLIFYLWVSNINPSFAKNQSIRGVLANTLYRKGPVLLSKELINLVRTSNCSITEDSLCILINSWGRLGLAKYCSQVFDQISYLGLTPSTRLYNAVIDALVKSNALDLAYLKFHQMKADRCDPDRFTYNFLIHGVCKIGVIDEASRLM...

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_005382
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_005382
LocationChr01:162335286-162339950 (-)
DescriptionSimilar to PPR40: Putative pentatricopeptide repeat-containing protein At3g16890, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g16890 Required for the ubiquinol-cytochrome c oxidoreductase activity of mitochondrial complex III.
Arabidopsis PPR40 connects abiotic stress responses to mitochondrial electron transport.2008 · DOI: 10.1104/pp.107.111260
At5g39710 Pentatricopeptide repeat-containing protein At5g39710. No verified direct reference in this release
At5g65560 Pentatricopeptide repeat-containing protein At5g65560. No verified direct reference in this release
At1g74580 Putative pentatricopeptide repeat-containing protein At1g74580. No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
UniProt: Q76C99 Reduces the expression of the cytoplasmic male sterility (CMS)-associated mitochondrial gene ORF79, encoding a cytotoxic peptide. No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_005382 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0006979 response to oxidative stress Biological Process
GO:0009651 response to salt stress Biological Process
GO:0009737 response to abscisic acid Biological Process
GO:0042775 mitochondrial ATP synthesis coupled electron transport 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:AT3G16890
ath:AT5G39710
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.

Mitochondrion0.720
Rank 1 · LXL04_005382 · OH-1004
Plastid0.187
Rank 2 · LXL04_005382 · OH-1004
Nucleus0.059
Rank 3 · LXL04_005382 · OH-1004
Cytoplasm0.034
Rank 4 · LXL04_005382 · OH-1004
Cell membrane0.017
Rank 5 · LXL04_005382 · 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.

PF29070.1MSC6_N162-295 aa
PF13812.13PPR_3189-245 aa
PF13041.13PPR_2200-249 aa
PF17177.11PPR_long200-334 aa
PF12854.14PPR_1232-264 aa
PF13041.13PPR_2238-284 aa
PF01535.27PPR238-267 aa
PF23276.3TPR_24256-354 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_005382PF29070.1MSC6_N1622952.8e-30106.4
LXL04_005382PF13812.13PPR_31892453.5e-49165.4
LXL04_005382PF13041.13PPR_22002495.2e-111363.4
LXL04_005382PF17177.11PPR_long2003345.9e-29101.7
LXL04_005382PF12854.14PPR_12322641.2e-92304.0
LXL04_005382PF13041.13PPR_22382845.2e-111363.4
LXL04_005382PF01535.27PPR2382671.7e-71232.3
LXL04_005382PF23276.3TPR_242563541.1e-33116.7
LXL04_005382PF13812.13PPR_32583143.5e-49165.4
LXL04_005382PF12854.14PPR_12672991.2e-92304.0
LXL04_005382PF01535.27PPR2733021.7e-71232.3
LXL04_005382PF13041.13PPR_22773185.2e-111363.4
LXL04_005382PF29070.1MSC6_N3645442.8e-30106.4
LXL04_005382PF13041.13PPR_24184635.2e-111363.4
LXL04_005382PF13812.13PPR_34444943.5e-49165.4
LXL04_005382PF12854.14PPR_14464771.2e-92304.0

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
Q9LSQ2Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At3g16890, mitochondrial53.086%Swiss-Protstrong database homology
Q9FIX3Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g3971028.675%Swiss-Protweak database homology
Q9LSL9Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g6556026.727%Swiss-Protweak database homology
Q9CA58Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At1g7458028.512%Swiss-Protweak database homology
Q76C99Oryza sativa subsp. indicaProtein Rf1, mitochondrial28.788%Swiss-Protweak database homology

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