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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_005440
Reference: OH-1004 Chr: Chr01 Coordinates: 163903504-163908580 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2247 bp · LXL04_005440|LXL04_005440|OH1004|cDNA

atgaaaTCCAATTTACCAGCTATgaaacaagttaccggcactttaggatgcgcgtgtcaaaatgagccgaTAACACTGGACAATATGCATTTCAAAGAGCACTGTTCGTTGCTGCTAAAAGTCCGAAAACCTTCAATCCCTTTTCTTTTCAACACAAGCACGAGTCTCAATCCACAGATTCACCAAGACCCAAAAACAGAGTTGAGAGAATCCGATGTCTTGAAGAGATTGAATCAAGAAAAAGATATTACTTCAGCTCT...

CDS

Download CDS FASTA

2247 bp · LXL04_005440|LXL04_005440|OH1004|CDS

ATGAAATCCAATTTACCAGCTATGAAACAAGTTACCGGCACTTTAGGATGCGCGTGTCAAAATGAGCCGATAACACTGGACAATATGCATTTCAAAGAGCACTGTTCGTTGCTGCTAAAAGTCCGAAAACCTTCAATCCCTTTTCTTTTCAACACAAGCACGAGTCTCAATCCACAGATTCACCAAGACCCAAAAACAGAGTTGAGAGAATCCGATGTCTTGAAGAGATTGAATCAAGAAAAAGATATTACTTCAGCTCT...

Protein

Download Protein FASTA

748 aa · LXL04_005440|LXL04_005440|OH1004|PROTEIN

MKSNLPAMKQVTGTLGCACQNEPITLDNMHFKEHCSLLLKVRKPSIPFLFNTSTSLNPQIHQDPKTELRESDVLKRLNQEKDITSALEYFKFISNSRSFKHTTLTYQTIIEKLGYEYDVNEVQYLLQQMKLEGINCSEDLFISVINSYRRAGSADQALKTFYRIQDFGCKPTVKIYNHLLDALLNENKFHLINPIYSNMKRDGMEPDKYTYNILLKALCKNNRIDSAHKVLVEMSKKGCPPDEVSYTTIVSSMCNLGKVK...

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_005440
TK1151 IDTkA01G050430
OH-1004 IDLXL04_005440
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)97.900
Protein coverage (%)TK1151 79.573 / OH-1004 69.786
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_005440
LocationChr01:163903504-163908580 (+)
DescriptionSimilar to At3g48810: Pentatricopeptide repeat-containing protein At3g48810
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g48810 Pentatricopeptide repeat-containing protein At3g48810. No verified direct reference in this release
At5g64320 Pentatricopeptide repeat-containing protein At5g64320, mitochondrial. No verified direct reference in this release
At1g74580 Putative pentatricopeptide repeat-containing protein At1g74580. No verified direct reference in this release
At3g09060 Pentatricopeptide repeat-containing protein At3g09060. No verified direct reference in this release
At1g12300 Pentatricopeptide repeat-containing protein At1g12300, 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_005440 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0000963 mitochondrial RNA processing Biological Process
GO:0008380 RNA splicing Biological Process
GO:0032543 mitochondrial translation Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT3G48810
ath:AT5G64320
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.

Mitochondrion0.846
Rank 1 · LXL04_005440 · OH-1004
Plastid0.103
Rank 2 · LXL04_005440 · OH-1004
Nucleus0.043
Rank 3 · LXL04_005440 · OH-1004
Cytoplasm0.036
Rank 4 · LXL04_005440 · OH-1004
Cell membrane0.015
Rank 5 · LXL04_005440 · 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.

PF17177.11PPR_long61-216 aa
PF29070.1MSC6_N84-231 aa
PF13812.13PPR_3125-183 aa
PF13041.13PPR_2171-220 aa
PF13812.13PPR_3195-251 aa
PF29070.1MSC6_N195-267 aa
PF12854.14PPR_1202-235 aa
PF01535.27PPR209-239 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_005440PF17177.11PPR_long612168.3e-39133.9
LXL04_005440PF29070.1MSC6_N842312.2e-38133.1
LXL04_005440PF13812.13PPR_31251831.9e-66220.8
LXL04_005440PF13041.13PPR_21712207e-138449.4
LXL04_005440PF13812.13PPR_31952511.9e-66220.8
LXL04_005440PF29070.1MSC6_N1952672.2e-38133.1
LXL04_005440PF12854.14PPR_12022351.2e-112368.0
LXL04_005440PF01535.27PPR2092391.3e-87282.8
LXL04_005440PF13041.13PPR_22122557e-138449.4
LXL04_005440PF12854.14PPR_12372661.2e-112368.0
LXL04_005440PF13041.13PPR_22763227e-138449.4
LXL04_005440PF13812.13PPR_32763211.9e-66220.8
LXL04_005440PF12854.14PPR_12783031.2e-112368.0
LXL04_005440PF01535.27PPR2783061.3e-87282.8
LXL04_005440PF17177.11PPR_long2783668.3e-39133.9
LXL04_005440PF29070.1MSC6_N2884412.2e-38133.1

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
Q9M302Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g4881047.981%Swiss-Protmoderate database homology
Q9FMF6Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g64320, mitochondrial31.046%Swiss-Protmoderate database homology
Q9CA58Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At1g7458030.335%Swiss-Protmoderate database homology
Q9SS81Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g0906028.776%Swiss-Protweak database homology
Q0WKV3Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g12300, mitochondrial29.167%Swiss-Protweak database homology

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