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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_031388
Reference: OH-1004 Chr: Chr07 Coordinates: 5284482-5285960 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1479 bp · LXL04_031388|LXL04_031388|OH1004|cDNA

ATGTTGTCGCCTAACAGCAGGCTTCGTGTGAAATATACCTCCTCTCTTAAATTATCGTTCTACAACCTCACGACCACCACGCCTCCTCCCTCCCCGCCGCCGCTAGTAGAGGATGATGCCGCCACTCTTTCCAGCCACATCCTAAAGTTAAATCCACAAGCCCTAACTCAAAATCTAGAAACCAATTCTGTCTGCTGGACTCCCGACCTGGTGAACAAAATCCTAAAACGCCTTTGGAATCATGGCCCCAAAGCCCTCCA...

CDS

Download CDS FASTA

1479 bp · LXL04_031388|LXL04_031388|OH1004|CDS

ATGTTGTCGCCTAACAGCAGGCTTCGTGTGAAATATACCTCCTCTCTTAAATTATCGTTCTACAACCTCACGACCACCACGCCTCCTCCCTCCCCGCCGCCGCTAGTAGAGGATGATGCCGCCACTCTTTCCAGCCACATCCTAAAGTTAAATCCACAAGCCCTAACTCAAAATCTAGAAACCAATTCTGTCTGCTGGACTCCCGACCTGGTGAACAAAATCCTAAAACGCCTTTGGAATCATGGCCCCAAAGCCCTCCA...

Protein

Download Protein FASTA

492 aa · LXL04_031388|LXL04_031388|OH1004|PROTEIN

MLSPNSRLRVKYTSSLKLSFYNLTTTTPPPSPPPLVEDDAATLSSHILKLNPQALTQNLETNSVCWTPDLVNKILKRLWNHGPKALQFFKLLERHPTYTHSATSFDHAIDIAARLRDYKTVWTLVGRMRKQRLGPTPKTFAIITERYVSAGKPDKAVRVFLSMHDHGCQQDLSSFNTFLDVLCKSKRAEMAYNLFKVLKRRFKADTISYNIIANGFCLIKRTPRALEVLREMVESGLEPTLKTYNVILNGYFKAGQIKEA...

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_031388
TK1151 IDTkA08G104370
OH-1004 IDLXL04_031388
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)61.100
Protein coverage (%)TK1151 94.684 / OH-1004 97.154
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_031388
LocationChr07:5284482-5285960 (+)
DescriptionSimilar to OTP43: Pentatricopeptide repeat-containing protein At1g74900, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
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
At1g77360 Pentatricopeptide repeat-containing protein At1g77360, mitochondrial. No verified direct reference in this release
At2g13420 Pentatricopeptide repeat-containing protein At2g13420, mitochondrial. No verified direct reference in this release
At1g71060 Pentatricopeptide repeat-containing protein At1g71060, mitochondrial. No verified direct reference in this release
At1g20300 Pentatricopeptide repeat-containing protein At1g20300, 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_031388 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0008380 RNA splicing Biological Process
GO:0005737 cytoplasm Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G74900
ath:AT1G77360
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.

Mitochondrion0.843
Rank 1 · LXL04_031388 · OH-1004
Plastid0.096
Rank 2 · LXL04_031388 · OH-1004
Nucleus0.049
Rank 3 · LXL04_031388 · OH-1004
Cytoplasm0.028
Rank 4 · LXL04_031388 · OH-1004
Cell membrane0.011
Rank 5 · LXL04_031388 · 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_N97-260 aa
PF17177.11PPR_long105-201 aa
PF13041.13PPR_2147-184 aa
PF13041.13PPR_2171-217 aa
PF23276.3TPR_24181-301 aa
PF13812.13PPR_3200-251 aa
PF12854.14PPR_1202-233 aa
PF13041.13PPR_2205-251 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_031388PF29070.1MSC6_N972602.3e-28100.1
LXL04_031388PF17177.11PPR_long1052016.6e-2795.0
LXL04_031388PF13041.13PPR_21471845.2e-93305.7
LXL04_031388PF13041.13PPR_21712175.2e-93305.7
LXL04_031388PF23276.3TPR_241813018e-2588.0
LXL04_031388PF13812.13PPR_32002512.6e-55185.1
LXL04_031388PF12854.14PPR_12022334e-65215.9
LXL04_031388PF13041.13PPR_22052515.2e-93305.7
LXL04_031388PF01535.27PPR2072379.1e-61198.7
LXL04_031388PF12854.14PPR_12362684e-65215.9
LXL04_031388PF13041.13PPR_22402865.2e-93305.7
LXL04_031388PF01535.27PPR2432709.1e-61198.7
LXL04_031388PF13812.13PPR_32663212.6e-55185.1
LXL04_031388PF29070.1MSC6_N2683712.3e-28100.1
LXL04_031388PF12854.14PPR_12743024e-65215.9
LXL04_031388PF13041.13PPR_22753235.2e-93305.7

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
Q9S7R4Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g74900, mitochondrial64.882%Swiss-Protstrong database homology
Q9FVX2Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g77360, mitochondrial29.748%Swiss-Protweak database homology
Q0WP85Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g13420, mitochondrial30.820%Swiss-Protmoderate database homology
Q9C9A2Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g71060, mitochondrial29.263%Swiss-Protweak database homology
Q9LN22Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g20300, mitochondrial27.409%Swiss-Protweak database homology

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