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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_018415
Reference: OH-1004 Chr: Chr04 Coordinates: 12564673-12567155 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2079 bp · LXL04_018415|LXL04_018415|OH1004|cDNA

ATGCGCCTCAAAATCAAACTTTTCTCCCATGTTCTTAGACATGGATTATATCCACTTTCATTCCACTTTACCCGCCAACTTGCGTcgtcgtcttcttcttcttcttcttcttcttcttcttcttctttctcacAAGAGCTGGCAACGAATTTACAAATTTTGTGCTCCACTGGTCACCTTGACTATGCGTTGACAGATATGGCCAGATTAGGCCTTCAAATGAAGTTCCACGAGTACGATACTCTGATAAATGAGTGTGT...

CDS

Download CDS FASTA

2079 bp · LXL04_018415|LXL04_018415|OH1004|CDS

ATGCGCCTCAAAATCAAACTTTTCTCCCATGTTCTTAGACATGGATTATATCCACTTTCATTCCACTTTACCCGCCAACTTGCGTCGTCGTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTTCTCACAAGAGCTGGCAACGAATTTACAAATTTTGTGCTCCACTGGTCACCTTGACTATGCGTTGACAGATATGGCCAGATTAGGCCTTCAAATGAAGTTCCACGAGTACGATACTCTGATAAATGAGTGTGT...

Protein

Download Protein FASTA

692 aa · LXL04_018415|LXL04_018415|OH1004|PROTEIN

MRLKIKLFSHVLRHGLYPLSFHFTRQLASSSSSSSSSSSSSSFSQELATNLQILCSTGHLDYALTDMARLGLQMKFHEYDTLINECVKQKSLRGGQRVQAHMIKTQYTPSVYLGTRLLILYNKCDCLWDAQQVFDEMPDRNVVSWTDLMSAYSKKGYASEALNLLVKMLRSGTEPNEHTFSTALTCCTGVYGLEHGMQIHNLTIKTSFQSHLYVGSSLLDMYAKAGEIHEARLVFEDLPQRDVVSCTAIISGYAQLGLDE...

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_018415
TK1151 IDTkAUNG064300
OH-1004 IDLXL04_018415
Relationship / confidenceSequence Supported Annotation Or Model Conflict / Review
Protein identity (%)99.400
Protein coverage (%)TK1151 99.711 / OH-1004 49.855
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_018415
LocationChr04:12564673-12567155 (+)
DescriptionSimilar to PCMP-H85: Putative pentatricopeptide repeat-containing protein At3g13770, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g13770 Putative pentatricopeptide repeat-containing protein At3g13770, mitochondrial. No verified direct reference in this release
At3g24000 Pentatricopeptide repeat-containing protein At3g24000, mitochondrial. No verified direct reference in this release
At3g46790 Required for the intergenic processing between chloroplast rsp7 and ndhB transcripts. No verified direct reference in this release
At2g03880 Pentatricopeptide repeat-containing protein At2g03880, mitochondrial. No verified direct reference in this release
At3g26782 Pentatricopeptide repeat-containing protein At3g26782, 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_018415 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0009451 RNA modification Biological Process
GO:0031425 chloroplast RNA processing Biological Process
GO:0031426 polycistronic mRNA processing 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
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT2G03880
ath:AT3G13770
ath:AT3G24000
ath:AT3G46790
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.

Mitochondrion0.716
Rank 1 · LXL04_018415 · OH-1004
Plastid0.190
Rank 2 · LXL04_018415 · OH-1004
Nucleus0.050
Rank 3 · LXL04_018415 · OH-1004
Cytoplasm0.036
Rank 4 · LXL04_018415 · OH-1004
Cell membrane0.008
Rank 5 · LXL04_018415 · 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_2140-187 aa
PF01535.27PPR143-172 aa
PF13812.13PPR_3240-288 aa
PF13041.13PPR_2241-287 aa
PF01535.27PPR244-273 aa
PF01535.27PPR317-342 aa
PF13041.13PPR_2343-391 aa
PF01535.27PPR345-373 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_018415PF13041.13PPR_21401875.9e-44148.7
LXL04_018415PF01535.27PPR1431724.4e-42140.1
LXL04_018415PF13812.13PPR_32402881.2e-2693.3
LXL04_018415PF13041.13PPR_22412875.9e-44148.7
LXL04_018415PF01535.27PPR2442734.4e-42140.1
LXL04_018415PF01535.27PPR3173424.4e-42140.1
LXL04_018415PF13041.13PPR_23433915.9e-44148.7
LXL04_018415PF01535.27PPR3453734.4e-42140.1
LXL04_018415PF12854.14PPR_14114439.6e-2586.7
LXL04_018415PF20431.5E_motif4625241e-1971.2
LXL04_018415PF14432.13DYW_deaminase5606524.1e-39133.0

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
Q9LIC3Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At3g13770, mitochondrial63.107%Swiss-Protstrong database homology
Q9LIQ7Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g24000, mitochondrial40.418%Swiss-Protmoderate database homology
Q9STF3Arabidopsis thalianaPentatricopeptide repeat-containing protein CRR2, chloroplastic39.082%Swiss-Protmoderate database homology
Q9SI53Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g03880, mitochondrial39.968%Swiss-Protmoderate database homology
Q9LW32Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g26782, mitochondrial37.730%Swiss-Protmoderate database homology

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