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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_029242
Reference: OH-1004 Chr: Chr06 Coordinates: 84671789-84674821 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2637 bp · LXL04_029242|LXL04_029242|OH1004|cDNA

ATGGATTTAAAGAGGCTCAGAATCTTCAAATTTTCACCCTTGAAGAGGAACCCCTTTCAATCAGCCTCTACCCAACACAAGCATTCAAAGTCATCCCCCAAAAAAACCCCAGTGCAGCTCGAGAATCAGGATTCGATCAAGTGGGTAACTTCAATTCTATCAAACCCGTCTCTAGATTCATCTAAGTGTAAAGATATAGTCACTCATTTGTCTCCACAACAGTTCGATAGTGTGTTCTCCGATATTAGGTATTCCGTGAA...

CDS

Download CDS FASTA

2637 bp · LXL04_029242|LXL04_029242|OH1004|CDS

ATGGATTTAAAGAGGCTCAGAATCTTCAAATTTTCACCCTTGAAGAGGAACCCCTTTCAATCAGCCTCTACCCAACACAAGCATTCAAAGTCATCCCCCAAAAAAACCCCAGTGCAGCTCGAGAATCAGGATTCGATCAAGTGGGTAACTTCAATTCTATCAAACCCGTCTCTAGATTCATCTAAGTGTAAAGATATAGTCACTCATTTGTCTCCACAACAGTTCGATAGTGTGTTCTCCGATATTAGGTATTCCGTGAA...

Protein

Download Protein FASTA

878 aa · LXL04_029242|LXL04_029242|OH1004|PROTEIN

MDLKRLRIFKFSPLKRNPFQSASTQHKHSKSSPKKTPVQLENQDSIKWVTSILSNPSLDSSKCKDIVTHLSPQQFDSVFSDIRYSVKPRTALSFFYFASRSCGFKFTIKSYCLLIHLLLASKLDDPARLLLIQLIDDKLPVLLHDPKNKHIEIATAFMEFHFSSDSLPTPTFDHLIHVYCTQFKSFGLDLASDVVRLIAKKHLFPSLTTCNILLTSLVKSNLLQKTHEIFNILRIGLQPDVYLFTTAINALCKDRKIKDA...

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_029242
TK1151 IDTkA07G290780
OH-1004 IDLXL04_029242
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)100.000
Protein coverage (%)TK1151 32.966 / OH-1004 30.638
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_029242
LocationChr06:84671789-84674821 (+)
DescriptionSimilar to At4g19440: Pentatricopeptide repeat-containing protein At4g19440, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g19440 Pentatricopeptide repeat-containing protein At4g19440, chloroplastic. No verified direct reference in this release
At5g59900 Putative pentatricopeptide repeat-containing protein At5g59900. No verified direct reference in this release
At5g65560 Pentatricopeptide repeat-containing protein At5g65560. No verified direct reference in this release
At5g39710 Pentatricopeptide repeat-containing protein At5g39710. No verified direct reference in this release
At1g63130 Pentatricopeptide repeat-containing protein At1g63130, 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_029242 · 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:AT5G59900
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.

Mitochondrion0.832
Rank 1 · LXL04_029242 · OH-1004
Plastid0.087
Rank 2 · LXL04_029242 · OH-1004
Nucleus0.054
Rank 3 · LXL04_029242 · OH-1004
Cytoplasm0.038
Rank 4 · LXL04_029242 · OH-1004
Cell membrane0.012
Rank 5 · LXL04_029242 · 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.

PF23276.3TPR_24231-330 aa
PF13812.13PPR_3234-284 aa
PF12854.14PPR_1236-268 aa
PF13041.13PPR_2239-280 aa
PF17177.11PPR_long242-364 aa
PF12854.14PPR_1271-302 aa
PF13041.13PPR_2274-323 aa
PF01535.27PPR278-307 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_029242PF23276.3TPR_242313302.2e-45154.5
LXL04_029242PF13812.13PPR_32342843.1e-78258.5
LXL04_029242PF12854.14PPR_12362688.3e-155502.9
LXL04_029242PF13041.13PPR_22392804.8e-176571.6
LXL04_029242PF17177.11PPR_long2423642.3e-46158.5
LXL04_029242PF12854.14PPR_12713028.3e-155502.9
LXL04_029242PF13041.13PPR_22743234.8e-176571.6
LXL04_029242PF01535.27PPR2783074.9e-126403.3
LXL04_029242PF13812.13PPR_32833193.1e-78258.5
LXL04_029242PF12854.14PPR_13053378.3e-155502.9
LXL04_029242PF13041.13PPR_23173544.8e-176571.6
LXL04_029242PF23276.3TPR_243324072.2e-45154.5
LXL04_029242PF13812.13PPR_33333913.1e-78258.5
LXL04_029242PF12854.14PPR_13403738.3e-155502.9
LXL04_029242PF29070.1MSC6_N3424404.7e-40138.6
LXL04_029242PF13041.13PPR_23443934.8e-176571.6

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
Q940A6Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g19440, chloroplastic46.500%Swiss-Protmoderate database homology
Q9FJE6Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At5g5990028.750%Swiss-Protweak database homology
Q9LSL9Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g6556028.777%Swiss-Protweak database homology
Q9FIX3Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g3971029.094%Swiss-Protweak database homology
Q9CAN0Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g63130, mitochondrial32.234%Swiss-Protmoderate database homology

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