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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_022839
Reference: OH-1004 Chr: Chr05 Coordinates: 10644999-10646576 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1578 bp · LXL04_022839|LXL04_022839|OH1004|cDNA

ATGTTCAGCTTGCTCCATTTCCACTCAATATCTTCATTCTCTTCTTCAACCTCTGAACCCAAAGAATTTATATCAGAAAGTGTGTCAAAACCTTTACTTCTTTCACTTGAACCATCAAACGATGCCGATTTAATTTCCCAGATGCTTATCCAACACCATAACCCATTCCACACAATGGAATCCTCTCTGCAACTCAACGGAATCAAAATCTCCCCAAATCTCGTCCACCAAACCCTACTTCGTCTCAAAAACATCTCCAA...

CDS

Download CDS FASTA

1578 bp · LXL04_022839|LXL04_022839|OH1004|CDS

ATGTTCAGCTTGCTCCATTTCCACTCAATATCTTCATTCTCTTCTTCAACCTCTGAACCCAAAGAATTTATATCAGAAAGTGTGTCAAAACCTTTACTTCTTTCACTTGAACCATCAAACGATGCCGATTTAATTTCCCAGATGCTTATCCAACACCATAACCCATTCCACACAATGGAATCCTCTCTGCAACTCAACGGAATCAAAATCTCCCCAAATCTCGTCCACCAAACCCTACTTCGTCTCAAAAACATCTCCAA...

Protein

Download Protein FASTA

525 aa · LXL04_022839|LXL04_022839|OH1004|PROTEIN

MFSLLHFHSISSFSSSTSEPKEFISESVSKPLLLSLEPSNDADLISQMLIQHHNPFHTMESSLQLNGIKISPNLVHQTLLRLKNISKVALAFFSWAKEQSHYSHDSHSYNLMIDILGKVRQFDVAWQLIIEMDQNGVNPTSTTFYVLIRRLISAGLTRQAIRAFDDMGCFVVNDSDLQQQQQEQQPVHDFYFLFDTLCKYGYPKVATEMFNKWKSWRFEPDAKIYTILIYGWCKINKPKMAERFFQEMVNNGIEPNVVTY...

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_022839
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_022839
LocationChr05:10644999-10646576 (+)
DescriptionSimilar to At2g13420: Pentatricopeptide repeat-containing protein At2g13420, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g13420 Pentatricopeptide repeat-containing protein At2g13420, mitochondrial. No verified direct reference in this release
At1g52640 Pentatricopeptide repeat-containing protein At1g52640, mitochondrial. No verified direct reference in this release
At1g20300 Pentatricopeptide repeat-containing protein At1g20300, mitochondrial. No verified direct reference in this release
At1g71060 Pentatricopeptide repeat-containing protein At1g71060, mitochondrial. No verified direct reference in this release
At1g74900 Required for the trans-splicing of intron 1 of the mitochondrial nad1 transcript encoding the ND1 subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I).
The pentatricopeptide repeat gene OTP43 is required for trans-splicing of the mitochondrial nad1 Intron 1 in Arabidopsis thaliana.2007 · DOI: 10.1105/tpc.107.054841

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_022839 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0005739 mitochondrion Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G20300
ath:AT1G52640
ath:AT1G71060
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.

Mitochondrion0.726
Rank 1 · LXL04_022839 · OH-1004
Plastid0.153
Rank 2 · LXL04_022839 · OH-1004
Nucleus0.065
Rank 3 · LXL04_022839 · OH-1004
Cytoplasm0.033
Rank 4 · LXL04_022839 · OH-1004
Cell membrane0.010
Rank 5 · LXL04_022839 · 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_2105-151 aa
PF17177.11PPR_long178-316 aa
PF13041.13PPR_2193-234 aa
PF12854.14PPR_1218-249 aa
PF13812.13PPR_3218-267 aa
PF13041.13PPR_2220-269 aa
PF29070.1MSC6_N222-318 aa
PF01535.27PPR224-253 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_022839PF13041.13PPR_21051518.6e-73241.0
LXL04_022839PF17177.11PPR_long1783165.3e-2279.0
LXL04_022839PF13041.13PPR_21932348.6e-73241.0
LXL04_022839PF12854.14PPR_12182494.5e-43145.4
LXL04_022839PF13812.13PPR_32182674.6e-37126.6
LXL04_022839PF13041.13PPR_22202698.6e-73241.0
LXL04_022839PF29070.1MSC6_N2223182e-1970.7
LXL04_022839PF01535.27PPR2242533.6e-44146.7
LXL04_022839PF17177.11PPR_long2413765.3e-2279.0
LXL04_022839PF12854.14PPR_12512704.5e-43145.4
LXL04_022839PF13041.13PPR_22833128.6e-73241.0
LXL04_022839PF13812.13PPR_32893454.6e-37126.6
LXL04_022839PF13041.13PPR_23043488.6e-73241.0
LXL04_022839PF23276.3TPR_243084231.6e-1970.9
LXL04_022839PF12854.14PPR_13313644.5e-43145.4
LXL04_022839PF13041.13PPR_23383818.6e-73241.0

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
Q0WP85Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g13420, mitochondrial63.286%Swiss-Protstrong database homology
Q9SSR6Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g52640, mitochondrial31.304%Swiss-Protmoderate database homology
Q9LN22Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g20300, mitochondrial30.820%Swiss-Protmoderate database homology
Q9C9A2Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g71060, mitochondrial29.598%Swiss-Protweak database homology
Q9S7R4Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g74900, mitochondrial28.261%Swiss-Protweak database homology

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