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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_003431
Reference: OH-1004 Chr: Chr01 Coordinates: 78925505-78928138 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2634 bp · LXL04_003431|LXL04_003431|OH1004|cDNA

ATGTTTGTCAAGCTTCAGCATTTAGATACCAATTGTATTCCAGTTCTCCATCCACTCAAGACCTCAAAACCCAACATCAATGGCGGAGTTTCACTTCCTCTTCCTTGCCACCGTACTGAAAGAGAATTTGAACAACTCACCAAGAAACACCAAATTCCACCTCAAAAACAATCCGATTTTGACAAAAGAGTTGTTTTTCATACTCCAAAGTCCAACCCAAATGGTTCAGTTGAAACTCCAGGGAGAAAAAAGGGTACAAT...

CDS

Download CDS FASTA

2634 bp · LXL04_003431|LXL04_003431|OH1004|CDS

ATGTTTGTCAAGCTTCAGCATTTAGATACCAATTGTATTCCAGTTCTCCATCCACTCAAGACCTCAAAACCCAACATCAATGGCGGAGTTTCACTTCCTCTTCCTTGCCACCGTACTGAAAGAGAATTTGAACAACTCACCAAGAAACACCAAATTCCACCTCAAAAACAATCCGATTTTGACAAAAGAGTTGTTTTTCATACTCCAAAGTCCAACCCAAATGGTTCAGTTGAAACTCCAGGGAGAAAAAAGGGTACAAT...

Protein

Download Protein FASTA

877 aa · LXL04_003431|LXL04_003431|OH1004|PROTEIN

MFVKLQHLDTNCIPVLHPLKTSKPNINGGVSLPLPCHRTEREFEQLTKKHQIPPQKQSDFDKRVVFHTPKSNPNGSVETPGRKKGTIEKDRAVKGRIWLRRHTLEKEKSQTNCTTQELNGNEEVKKVHTNCSTKVVPENGVVKKGHTKCSSKWARYGGCIPAILDTLERVTHLDEAFKPWELSLSNKERTIILKEQKSWQRAMEIFNWFKKKGCYELNVIHYNIMIRILGKAQRWEELEILLEEMQKIKIESINSTYGTL...

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_003431
TK1151 IDTkA01G360820
OH-1004 IDLXL04_003431
Relationship / confidenceRbh Sequence Supported / Probable
Protein identity (%)92.800
Protein coverage (%)TK1151 100.000 / OH-1004 100.000
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_003431
LocationChr01:78925505-78928138 (-)
DescriptionSimilar to At3g23020: Pentatricopeptide repeat-containing protein At3g23020
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g23020 Pentatricopeptide repeat-containing protein At3g23020. No verified direct reference in this release
At1g73710 Pentatricopeptide repeat-containing protein At1g73710. No verified direct reference in this release
At5g02860 Pentatricopeptide repeat-containing protein At5g02860. No verified direct reference in this release
At2g02150 Putative pentatricopeptide repeat-containing protein At2g02150. No verified direct reference in this release
At3g06920 Pentatricopeptide repeat-containing protein At3g06920. 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_003431 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006355 regulation of DNA-templated transcription Biological Process
GO:0010343 singlet oxygen-mediated programmed cell death Biological Process
GO:1904821 chloroplast disassembly Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G73710
ath:AT3G23020
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.

Mitochondrion0.709
Rank 1 · LXL04_003431 · OH-1004
Plastid0.182
Rank 2 · LXL04_003431 · OH-1004
Nucleus0.074
Rank 3 · LXL04_003431 · OH-1004
Cytoplasm0.036
Rank 4 · LXL04_003431 · OH-1004
Cell membrane0.012
Rank 5 · LXL04_003431 · 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.

PF17177.11PPR_long197-308 aa
PF13041.13PPR_2218-265 aa
PF13041.13PPR_2256-298 aa
PF29070.1MSC6_N329-430 aa
PF17177.11PPR_long329-416 aa
PF13812.13PPR_3330-382 aa
PF23276.3TPR_24330-430 aa
PF12854.14PPR_1331-361 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_003431PF17177.11PPR_long1973083e-31109.2
LXL04_003431PF13041.13PPR_22182651.5e-92304.2
LXL04_003431PF13041.13PPR_22562981.5e-92304.2
LXL04_003431PF29070.1MSC6_N3294303.5e-34119.2
LXL04_003431PF17177.11PPR_long3294163e-31109.2
LXL04_003431PF13812.13PPR_33303822.8e-48162.6
LXL04_003431PF23276.3TPR_243304301.8e-38132.1
LXL04_003431PF12854.14PPR_13313612.9e-52174.8
LXL04_003431PF13041.13PPR_23353801.5e-92304.2
LXL04_003431PF01535.27PPR3363664.6e-80259.2
LXL04_003431PF12854.14PPR_13643972.9e-52174.8
LXL04_003431PF13041.13PPR_23684141.5e-92304.2
LXL04_003431PF01535.27PPR3714014.6e-80259.2
LXL04_003431PF13041.13PPR_24034501.5e-92304.2
LXL04_003431PF29070.1MSC6_N4256003.5e-34119.2
LXL04_003431PF13041.13PPR_24384811.5e-92304.2

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
Q9LS88Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g2302058.503%Swiss-Protstrong database homology
Q9C9U0Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g7371037.451%Swiss-Protmoderate database homology
Q9LYZ9Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g0286026.062%Swiss-Protweak database homology
P0C894Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At2g0215023.983%Swiss-Protweak database homology
Q9M907Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g0692023.214%Swiss-Protweak database homology

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