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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_019031
Reference: OH-1004 Chr: Chr04 Coordinates: 22368398-22369801 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1404 bp · LXL04_019031|LXL04_019031|OH1004|cDNA

ATGACTTGGATTCGTCCTCTCTTTGTTAACCTGTTCAGAAATCAATACCCCAAACACTTCACCATTTCTTGCCATCTCAATCACAGTATCTCAAAACTTGATCCACTTATAAACGAGAGCAATGACTACACCAGCCAAGATTGGGCTAAGACAATATCAACCCGAATCACAAACTGCACAAACATACAGCAACTCAACGAAATCTACGCCCATGTTATCAGAATCCATATGCTTCAACTTTACAGCGCGCCATTTTATTG...

CDS

Download CDS FASTA

1404 bp · LXL04_019031|LXL04_019031|OH1004|CDS

ATGACTTGGATTCGTCCTCTCTTTGTTAACCTGTTCAGAAATCAATACCCCAAACACTTCACCATTTCTTGCCATCTCAATCACAGTATCTCAAAACTTGATCCACTTATAAACGAGAGCAATGACTACACCAGCCAAGATTGGGCTAAGACAATATCAACCCGAATCACAAACTGCACAAACATACAGCAACTCAACGAAATCTACGCCCATGTTATCAGAATCCATATGCTTCAACTTTACAGCGCGCCATTTTATTG...

Protein

Download Protein FASTA

467 aa · LXL04_019031|LXL04_019031|OH1004|PROTEIN

MTWIRPLFVNLFRNQYPKHFTISCHLNHSISKLDPLINESNDYTSQDWAKTISTRITNCTNIQQLNEIYAHVIRIHMLQLYSAPFYWNTIIRAYTRFSSPSKALYVSIAMSRAGVYPDTYTLPVILTSISQKNDISIITQFHTVAKKHGLDTNLFCESGFIRLYSKAGEFNNARKLFDESPERNLGSWNAIIGGLSKSGRAREAVNMFLELKRSGLAPDDVTMVSVTSACGSLGDLGLSLQLHKCVLQAKTLEKSDLLML...

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_019031
TK1151 IDTkA05G012680
OH-1004 IDLXL04_019031
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)99.400
Protein coverage (%)TK1151 100.000 / OH-1004 76.660
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_019031
LocationChr04:22368398-22369801 (-)
DescriptionSimilar to PCMP-E21: Pentatricopeptide repeat-containing protein At1g77170, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g77170 Pentatricopeptide repeat-containing protein At1g77170, mitochondrial. No verified direct reference in this release
At4g21065 Pentatricopeptide repeat-containing protein At4g21065. No verified direct reference in this release
At1g59720 Involved in multiple sites RNA editing events in chloroplasts.
Pentatricopeptide repeat proteins with the DYW motif have distinct molecular functions in RNA editing and RNA cleavage in Arabidopsis chloroplasts.2009 · DOI: 10.1105/tpc.108.064667
At2g13600 Pentatricopeptide repeat-containing protein At2g13600. No verified direct reference in this release
At2g02980 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

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_019031 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0009451 RNA modification Biological Process
GO:0016556 mRNA modification Biological Process
GO:0031425 chloroplast RNA processing Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0004519 endonuclease activity Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT1G59720
ath:AT1G77170
ath:AT2G02980
ath:AT4G21065
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.

Mitochondrion0.695
Rank 1 · LXL04_019031 · OH-1004
Plastid0.137
Rank 2 · LXL04_019031 · OH-1004
Nucleus0.052
Rank 3 · LXL04_019031 · OH-1004
Cytoplasm0.028
Rank 4 · LXL04_019031 · OH-1004
Cell membrane0.005
Rank 5 · LXL04_019031 · 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_287-127 aa
PF13041.13PPR_2184-230 aa
PF01535.27PPR187-216 aa
PF01535.27PPR260-288 aa
PF13041.13PPR_2260-289 aa
PF13041.13PPR_2286-335 aa
PF01535.27PPR290-317 aa
PF20431.5E_motif405-464 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_019031PF13041.13PPR_2871275.9e-37126.3
LXL04_019031PF13041.13PPR_21842305.9e-37126.3
LXL04_019031PF01535.27PPR1872164.5e-41137.0
LXL04_019031PF01535.27PPR2602884.5e-41137.0
LXL04_019031PF13041.13PPR_22602895.9e-37126.3
LXL04_019031PF13041.13PPR_22863355.9e-37126.3
LXL04_019031PF01535.27PPR2903174.5e-41137.0
LXL04_019031PF20431.5E_motif4054644.2e-1762.9

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
Q3ECB8Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g77170, mitochondrial56.444%Swiss-Protstrong database homology
A8MQA3Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g2106539.267%Swiss-Protmoderate database homology
Q0WQW5Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g59720, chloroplastic/mitochondrial35.892%Swiss-Protmoderate database homology
Q9SIT7Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g1360036.232%Swiss-Protmoderate database homology
Q8LK93Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g02980, chloroplastic36.480%Swiss-Protmoderate database homology

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