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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_032921
Reference: OH-1004 Chr: Chr07 Coordinates: 31651994-31660187 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1887 bp · LXL04_032921|LXL04_032921|OH1004|cDNA

atgacaaaacatatacctccaaagttctttgaatacattcgagaacttatagagactcatcaggttgaaataaaatatgttcaatccagtaacaatgcaacagatctttttacgaaggcacttccaactgcaatctttagaaagcatgtgcatggtatcggaatgcgatatgtgaacaacatTCTAAGGCTATTAGGTGTGGGCATGGTGTTGGAACACCAACATCCATGCCACATCACCTCCACATCATCAACAACACC...

CDS

Download CDS FASTA

1887 bp · LXL04_032921|LXL04_032921|OH1004|CDS

ATGACAAAACATATACCTCCAAAGTTCTTTGAATACATTCGAGAACTTATAGAGACTCATCAGGTTGAAATAAAATATGTTCAATCCAGTAACAATGCAACAGATCTTTTTACGAAGGCACTTCCAACTGCAATCTTTAGAAAGCATGTGCATGGTATCGGAATGCGATATGTGAACAACATTCTAAGGCTATTAGGTGTGGGCATGGTGTTGGAACACCAACATCCATGCCACATCACCTCCACATCATCAACAACACC...

Protein

Download Protein FASTA

628 aa · LXL04_032921|LXL04_032921|OH1004|PROTEIN

MTKHIPPKFFEYIRELIETHQVEIKYVQSSNNATDLFTKALPTAIFRKHVHGIGMRYVNNILRLLGVGMVLEHQHPCHITSTSSTTPHPNVAERALVIMNSKLPSLRSLLDKCSKNKNLIAQIHAHATTLGLFRTQQHFACKLLNIYAKNLNNPTKAHGIFNQIHNPDLVSWTCLMSLYLQNQQPFKTLSLFSDMITSTGLNPDGHCIVAAISACGSAKNLVMGKIVHGMVFRYELGGERDGPIVSNALIDLYSRNGQIG...

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.

Download Gene (CDS) Download Protein

ID Mapping

Input IDLXL04_032921
TK1151 IDTkA08G213520
OH-1004 IDLXL04_032921
Relationship / confidenceSequence Supported Annotation Or Model Conflict / Review
Protein identity (%)100.000
Protein coverage (%)TK1151 100.000 / OH-1004 57.484
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_032921
LocationChr07:31651994-31660187 (-)
DescriptionSimilar to PCMP-E76: Pentatricopeptide repeat-containing protein At2g13600
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g13600 Pentatricopeptide repeat-containing protein At2g13600. No verified direct reference in this release
At2g22410 Pentatricopeptide repeat-containing protein At2g22410, mitochondrial. No verified direct reference in this release
At5g59200 Involved in RNA editing event in chloroplasts.
A study of new Arabidopsis chloroplast RNA editing mutants reveals general features of editing factors and their target sites.2009 · DOI: 10.1105/tpc.109.071472
At2g29760 Involved in RNA editing event in chloroplasts.
A study of new Arabidopsis chloroplast RNA editing mutants reveals general features of editing factors and their target sites.2009 · DOI: 10.1105/tpc.109.071472
At3g04750 Pentatricopeptide repeat-containing protein At3g04750, 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_032921 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0009451 RNA modification Biological Process
GO:0010182 sugar mediated signaling pathway Biological Process
GO:0016556 mRNA modification Biological Process
GO:0080156 mitochondrial mRNA modification Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
KEGG gene cross-reference
ath:AT2G13600
ath:AT2G22410
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.

Mitochondrion0.646
Rank 1 · LXL04_032921 · OH-1004
Plastid0.211
Rank 2 · LXL04_032921 · OH-1004
Nucleus0.048
Rank 3 · LXL04_032921 · OH-1004
Cytoplasm0.040
Rank 4 · LXL04_032921 · OH-1004
Cell membrane0.006
Rank 5 · LXL04_032921 · 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_2167-214 aa
PF01535.27PPR247-273 aa
PF13041.13PPR_2303-351 aa
PF01535.27PPR306-333 aa
PF13041.13PPR_2375-407 aa
PF01535.27PPR380-406 aa
PF12854.14PPR_1380-402 aa
PF13041.13PPR_2405-453 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_032921PF13041.13PPR_21672144.8e-48161.8
LXL04_032921PF01535.27PPR2472732.2e-47156.8
LXL04_032921PF13041.13PPR_23033514.8e-48161.8
LXL04_032921PF01535.27PPR3063332.2e-47156.8
LXL04_032921PF13041.13PPR_23754074.8e-48161.8
LXL04_032921PF01535.27PPR3804062.2e-47156.8
LXL04_032921PF12854.14PPR_13804025.6e-30103.5
LXL04_032921PF13041.13PPR_24054534.8e-48161.8
LXL04_032921PF13812.13PPR_34054533e-1763.2
LXL04_032921PF01535.27PPR4084382.2e-47156.8
LXL04_032921PF12854.14PPR_14735045.6e-30103.5
LXL04_032921PF20431.5E_motif5255851.3e-1970.9

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
Q9SIT7Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g1360036.117%Swiss-Protmoderate database homology
Q9SJZ3Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g22410, mitochondrial38.724%Swiss-Protmoderate database homology
Q9FIF7Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At5g59200, chloroplastic34.270%Swiss-Protmoderate database homology
O82380Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g29760, chloroplastic36.538%Swiss-Protmoderate database homology
Q9SR01Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g04750, mitochondrial37.552%Swiss-Protmoderate database homology

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