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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_012951
Reference: OH-1004 Chr: Chr03 Coordinates: 21465670-21468684 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

3015 bp · LXL04_012951|LXL04_012951|OH1004|cDNA

ATGAAATTATTGTTCAATTTCCGAGCAGTATACTCGAGTGCTAATCTTTTGCCCGTCCATCTGAAGAATCTACAGTCTTCTAGTTTTTCAATCATCACTCGAAGAAACCCAAATCGAAAGAACACTGAAGAAGTCTCTACGAATAttggaaaagaaaagaaagattTCGCTGATCTTTTCGAGGAAATCACCCAGATTTTAGGAACCCATAATTTCAATGCGGATACCACCAATGAAGGAATCCCGTTTCCAACAATGAA...

CDS

Download CDS FASTA

3015 bp · LXL04_012951|LXL04_012951|OH1004|CDS

ATGAAATTATTGTTCAATTTCCGAGCAGTATACTCGAGTGCTAATCTTTTGCCCGTCCATCTGAAGAATCTACAGTCTTCTAGTTTTTCAATCATCACTCGAAGAAACCCAAATCGAAAGAACACTGAAGAAGTCTCTACGAATATTGGAAAAGAAAAGAAAGATTTCGCTGATCTTTTCGAGGAAATCACCCAGATTTTAGGAACCCATAATTTCAATGCGGATACCACCAATGAAGGAATCCCGTTTCCAACAATGAA...

Protein

Download Protein FASTA

1004 aa · LXL04_012951|LXL04_012951|OH1004|PROTEIN

MKLLFNFRAVYSSANLLPVHLKNLQSSSFSIITRRNPNRKNTEEVSTNIGKEKKDFADLFEEITQILGTHNFNADTTNEGIPFPTMNTMNEKAGDSSDCTEAVCENAYMSRELMAEKDVSPIVHKVTQILRGEEAEVSIEEQLEYIDVKFDSEVVDKVLKRCFKVPDLALRFFNWIKDKHQSSITTATYNTMIYILGESKKLNMVEDLLKEMEKNSYNKDIKTWTILISQYGKSNAVGKVLLLFEDIKKAGFEPDLALYK...

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_012951
TK1151 IDTkA02G527090
OH-1004 IDLXL04_012951
Relationship / confidenceSequence Supported Annotation Or Model Conflict / Review
Protein identity (%)100.000
Protein coverage (%)TK1151 100.000 / OH-1004 19.124
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_012951
LocationChr03:21465670-21468684 (+)
DescriptionSimilar to At5g06400: Putative pentatricopeptide repeat-containing protein At5g06400, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g06400 Putative pentatricopeptide repeat-containing protein At5g06400, mitochondrial. No verified direct reference in this release
At3g06920 Pentatricopeptide repeat-containing protein At3g06920. No verified direct reference in this release
At4g31850 Plays a role in the stabilization of the primary polycistronic transcript of the petL operon encoding subunits of the cytochrome b6-f complex.
PPR motifs of the nucleus-encoded factor, PGR3, function in the selective and distinct steps of chloroplast gene expression in Arabidopsis.2004 · DOI: 10.1111/j.1365-313x.2004.02035.x
At4g19440 Pentatricopeptide repeat-containing protein At4g19440, chloroplastic. No verified direct reference in this release
At5g65560 Pentatricopeptide repeat-containing protein At5g65560. 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_012951 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0000965 mitochondrial RNA 3'-end processing Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
KEGG gene cross-reference
ath:AT4G19440
ath:AT5G06400
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.

Mitochondrion0.844
Rank 1 · LXL04_012951 · OH-1004
Plastid0.091
Rank 2 · LXL04_012951 · OH-1004
Nucleus0.062
Rank 3 · LXL04_012951 · OH-1004
Cytoplasm0.037
Rank 4 · LXL04_012951 · OH-1004
Cell membrane0.014
Rank 5 · LXL04_012951 · 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_N148-244 aa
PF17177.11PPR_long158-314 aa
PF13041.13PPR_2186-229 aa
PF13041.13PPR_2220-267 aa
PF17177.11PPR_long229-375 aa
PF29070.1MSC6_N271-351 aa
PF13041.13PPR_2329-374 aa
PF01535.27PPR329-358 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_012951PF29070.1MSC6_N1482443.7e-32112.6
LXL04_012951PF17177.11PPR_long1583146.1e-39134.3
LXL04_012951PF13041.13PPR_21862292e-101332.7
LXL04_012951PF13041.13PPR_22202672e-101332.7
LXL04_012951PF17177.11PPR_long2293756.1e-39134.3
LXL04_012951PF29070.1MSC6_N2713513.7e-32112.6
LXL04_012951PF13041.13PPR_23293742e-101332.7
LXL04_012951PF01535.27PPR3293585.5e-74240.1
LXL04_012951PF17177.11PPR_long4075366.1e-39134.3
LXL04_012951PF29070.1MSC6_N4095243.7e-32112.6
LXL04_012951PF13041.13PPR_24314682e-101332.7
LXL04_012951PF13812.13PPR_34535092.7e-48162.6
LXL04_012951PF13041.13PPR_24655132e-101332.7
LXL04_012951PF13812.13PPR_36717332.7e-48162.6
LXL04_012951PF13041.13PPR_26867312e-101332.7
LXL04_012951PF01535.27PPR6877165.5e-74240.1

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
Q9FNG8Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At5g06400, mitochondrial48.216%Swiss-Protmoderate database homology
Q9M907Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g0692019.290%Swiss-Protweak database homology
Q9SZ52Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g31850, chloroplastic23.106%Swiss-Protweak database homology
Q940A6Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g19440, chloroplastic24.688%Swiss-Protweak database homology
Q9LSL9Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g6556023.887%Swiss-Protweak database homology

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