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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_013078
Reference: OH-1004 Chr: Chr03 Coordinates: 23599346-23601940 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2595 bp · LXL04_013078|LXL04_013078|OH1004|cDNA

ATGTTACTCCAAAAAACTCTCCAAAACCTCAGGAGTATCAAGAAGTTTGGCAACCTTCCGACCACCACCCAAGCTGCCACCCAAACTGCCCGGCAAATTGCTGAGGTTATCATCTCCTCCGCCTCTCAAACACCCACAACCACTGAAGCCCCTGCTGCCCTTCTGTCCACCCTTACTCCCGAGATAGTCAAATCGGTTCTCTCAGACCAGTGTATAAAGACTAAAGACTGCCTATCGTTCTTCGACGTCATCTCCAAAAA...

CDS

Download CDS FASTA

2595 bp · LXL04_013078|LXL04_013078|OH1004|CDS

ATGTTACTCCAAAAAACTCTCCAAAACCTCAGGAGTATCAAGAAGTTTGGCAACCTTCCGACCACCACCCAAGCTGCCACCCAAACTGCCCGGCAAATTGCTGAGGTTATCATCTCCTCCGCCTCTCAAACACCCACAACCACTGAAGCCCCTGCTGCCCTTCTGTCCACCCTTACTCCCGAGATAGTCAAATCGGTTCTCTCAGACCAGTGTATAAAGACTAAAGACTGCCTATCGTTCTTCGACGTCATCTCCAAAAA...

Protein

Download Protein FASTA

864 aa · LXL04_013078|LXL04_013078|OH1004|PROTEIN

MLLQKTLQNLRSIKKFGNLPTTTQAATQTARQIAEVIISSASQTPTTTEAPAALLSTLTPEIVKSVLSDQCIKTKDCLSFFDVISKNTSLIPFTIQVEHYVKIIYRAIKSRRLEEAESLLNTVANDGNLRCTFSHLVALAESQGFDSKNSSKILNLILKVYSDNGKFVAAFETFNYMRNNVIAIDERLCSIYLITLLKYDLELGLVFFYKMVDSGIDVWVVIDGLCQNGEIQTARQLLEAVCKSVKPNMVTFNTLVDSCC...

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_013078
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_013078
LocationChr03:23599346-23601940 (-)
DescriptionSimilar to At2g28050: Pentatricopeptide repeat-containing protein At2g28050
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g28050 Pentatricopeptide repeat-containing protein At2g28050. No verified direct reference in this release
At2g32630 Pentatricopeptide repeat-containing protein At2g32630. No verified direct reference in this release
At5g61990 Pentatricopeptide repeat-containing protein At5g61990, mitochondrial. No verified direct reference in this release
At1g19290 Putative pentatricopeptide repeat-containing protein At1g19290. 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_013078 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006396 RNA processing Biological Process
GO:0007005 mitochondrion organization Biological Process
GO:0090617 mitochondrial mRNA 5'-end processing Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT2G28050
ath:AT2G32630
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.

Mitochondrion0.569
Rank 1 · LXL04_013078 · OH-1004
Plastid0.165
Rank 2 · LXL04_013078 · OH-1004
Cytoplasm0.151
Rank 3 · LXL04_013078 · OH-1004
Nucleus0.071
Rank 4 · LXL04_013078 · OH-1004
Peroxisome0.026
Rank 5 · LXL04_013078 · 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_2221-261 aa
PF29070.1MSC6_N228-379 aa
PF13812.13PPR_3239-292 aa
PF12854.14PPR_1244-267 aa
PF13041.13PPR_2247-294 aa
PF01535.27PPR250-280 aa
PF17177.11PPR_long252-405 aa
PF12854.14PPR_1279-310 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_013078PF13041.13PPR_22212618.6e-85279.4
LXL04_013078PF29070.1MSC6_N2283792.2e-2590.3
LXL04_013078PF13812.13PPR_32392924.3e-43145.9
LXL04_013078PF12854.14PPR_12442674.4e-67222.2
LXL04_013078PF13041.13PPR_22472948.6e-85279.4
LXL04_013078PF01535.27PPR2502801.2e-63207.7
LXL04_013078PF17177.11PPR_long2524051.7e-1764.2
LXL04_013078PF12854.14PPR_12793104.4e-67222.2
LXL04_013078PF13812.13PPR_33053594.3e-43145.9
LXL04_013078PF23276.3TPR_243064099e-31107.3
LXL04_013078PF13041.13PPR_23213658.6e-85279.4
LXL04_013078PF13041.13PPR_25435838.6e-85279.4
LXL04_013078PF13812.13PPR_35986584.3e-43145.9
LXL04_013078PF12854.14PPR_16066344.4e-67222.2
LXL04_013078PF13041.13PPR_26106578.6e-85279.4
LXL04_013078PF29070.1MSC6_N6397742.2e-2590.3

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
Q9ZUU7Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g2805037.587%Swiss-Protweak database homology
Q8S8P6Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g3263031.868%Swiss-Protmoderate database homology
Q9FIT7Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g61990, mitochondrial23.099%Swiss-Protweak database homology
Q9LN69Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At1g1929023.775%Swiss-Protweak database homology
Q76C99Oryza sativa subsp. indicaProtein Rf1, mitochondrial23.750%Swiss-Protweak database homology

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