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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_002273
Reference: OH-1004 Chr: Chr01 Coordinates: 45011609-45013093 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1485 bp · LXL04_002273|LXL04_002273|OH1004|cDNA

ATGTATGAAACGGAGGGAAAAATGCAGGCTTTGAGAAGTTTTTTGAGAAATCCAACAATTTCTATTGTAGAAACATGCAAAACCCGTATAGAAATAAACCAAATACACTCCCAATTGCTGGTTAATGGTTTCGTCAATGACCCAGATCTTGTATCCAAATTTGCTGCATCAATCGCCCTCAAACACCCTCAAAATATCGATTATTCTGTTCAACTATTGGACCAGTGTGAAAATCCTTCAGTGTTTGCTTTAAACTCTCT...

CDS

Download CDS FASTA

1485 bp · LXL04_002273|LXL04_002273|OH1004|CDS

ATGTATGAAACGGAGGGAAAAATGCAGGCTTTGAGAAGTTTTTTGAGAAATCCAACAATTTCTATTGTAGAAACATGCAAAACCCGTATAGAAATAAACCAAATACACTCCCAATTGCTGGTTAATGGTTTCGTCAATGACCCAGATCTTGTATCCAAATTTGCTGCATCAATCGCCCTCAAACACCCTCAAAATATCGATTATTCTGTTCAACTATTGGACCAGTGTGAAAATCCTTCAGTGTTTGCTTTAAACTCTCT...

Protein

Download Protein FASTA

494 aa · LXL04_002273|LXL04_002273|OH1004|PROTEIN

MYETEGKMQALRSFLRNPTISIVETCKTRIEINQIHSQLLVNGFVNDPDLVSKFAASIALKHPQNIDYSVQLLDQCENPSVFALNSLIRVYSKSSTPEKCFDFYKRIVKSNHQPDNYTFTFLIKSAAQLLVKNLGLAVHGTSLKYGLDQDPHVQSGLINLYAEMGFLRDLKDLFFNIHEPDLVTHTTMVVACARLGDIAFARQLFDKMPDRDVIAWNAMIAGYVQYGEPSKGLELFNMMEINSLKVNEATMVSVLSACTQ...

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_002273
TK1151 IDTkA01G443940
OH-1004 IDLXL04_002273
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)82.300
Protein coverage (%)TK1151 100.000 / OH-1004 98.583
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_002273
LocationChr01:45011609-45013093 (-)
DescriptionSimilar to PCMP-H14: Putative pentatricopeptide repeat-containing protein At5g40405
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g40405 Putative pentatricopeptide repeat-containing protein At5g40405. No verified direct reference in this release
At5g06540 Pentatricopeptide repeat-containing protein At5g06540. No verified direct reference in this release
At5g66520 Pentatricopeptide repeat-containing protein At5g66520. No verified direct reference in this release
At5g08305 Pentatricopeptide repeat-containing protein At5g08305. No verified direct reference in this release
At5g15300 Pentatricopeptide repeat-containing protein At5g15300. 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_002273 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0009451 RNA modification Biological Process
GO:0016554 cytidine to uridine editing Biological Process
GO:0031425 chloroplast RNA processing Biological Process
GO:1900865 chloroplast RNA modification Biological Process
GO:0005634 nucleus Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0003729 mRNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT5G06540
ath:AT5G08305
ath:AT5G15300
ath:AT5G40405
ath:AT5G66520
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.

Mitochondrion0.652
Rank 1 · LXL04_002273 · OH-1004
Plastid0.201
Rank 2 · LXL04_002273 · OH-1004
Nucleus0.044
Rank 3 · LXL04_002273 · OH-1004
Cytoplasm0.033
Rank 4 · LXL04_002273 · OH-1004
Cell membrane0.006
Rank 5 · LXL04_002273 · 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_279-125 aa
PF23276.3TPR_24192-306 aa
PF13041.13PPR_2211-258 aa
PF01535.27PPR215-240 aa
PF13041.13PPR_2312-360 aa
PF17177.11PPR_long335-412 aa
PF13812.13PPR_3341-396 aa
PF12854.14PPR_1344-376 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_002273PF13041.13PPR_2791251.1e-41141.4
LXL04_002273PF23276.3TPR_241923061.4e-1248.3
LXL04_002273PF13041.13PPR_22112581.1e-41141.4
LXL04_002273PF01535.27PPR2152406.3e-40133.4
LXL04_002273PF13041.13PPR_23123601.1e-41141.4
LXL04_002273PF17177.11PPR_long3354121.1e-1455.1
LXL04_002273PF13812.13PPR_33413962.2e-1454.0
LXL04_002273PF12854.14PPR_13443764e-2588.0
LXL04_002273PF13041.13PPR_23483841.1e-41141.4
LXL04_002273PF01535.27PPR3513796.3e-40133.4
LXL04_002273PF20431.5E_motif4314921.2e-1971.0

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
Q9FND7Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At5g4040553.638%Swiss-Protstrong database homology
Q9FG16Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g0654038.557%Swiss-Protmoderate database homology
Q9FJY7Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g6652037.526%Swiss-Protmoderate database homology
P0C8Q7Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g0830539.407%Swiss-Protmoderate database homology
Q9LXF2Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g1530035.603%Swiss-Protmoderate database homology

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