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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_013452
Reference: OH-1004 Chr: Chr03 Coordinates: 29873485-29875263 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1779 bp · LXL04_013452|LXL04_013452|OH1004|cDNA

ATGGCTAATATAAGATATGCTACAAATGAAAAACATTTAGTGAAGACAATCTGCGCAGTTGTGCTAAAAGGCTGTTCTTGGGACTCTCTCTTGAAACCCCAAATTGGTTCAATTATTTCCTCAACCACCGTTAATAACATACTCCAGAATCTATCCCAAAACGCGTCTTCTTGTATTATCTCTTGGAACTTCTTCAAATGGATCGAACTACATCCTAACTACAAGCACTCGTTACAATCTTCCTGGACCATGATTCACAT...

CDS

Download CDS FASTA

1779 bp · LXL04_013452|LXL04_013452|OH1004|CDS

ATGGCTAATATAAGATATGCTACAAATGAAAAACATTTAGTGAAGACAATCTGCGCAGTTGTGCTAAAAGGCTGTTCTTGGGACTCTCTCTTGAAACCCCAAATTGGTTCAATTATTTCCTCAACCACCGTTAATAACATACTCCAGAATCTATCCCAAAACGCGTCTTCTTGTATTATCTCTTGGAACTTCTTCAAATGGATCGAACTACATCCTAACTACAAGCACTCGTTACAATCTTCCTGGACCATGATTCACAT...

Protein

Download Protein FASTA

592 aa · LXL04_013452|LXL04_013452|OH1004|PROTEIN

MANIRYATNEKHLVKTICAVVLKGCSWDSLLKPQIGSIISSTTVNNILQNLSQNASSCIISWNFFKWIELHPNYKHSLQSSWTMIHILTKQRHFKSAHQLLDKIALRDFLSSPTVLNALSTTYDDQDVNSHVLSWLVIFYSNSKMAQDAIQVFEHMRVHNLKPHLPACTVLLNSLVKEKLTDTVWKVYKKMVKIGIVPNLHIYNVLIHACCNSSDIQKAEELLTEMEFKSIFPDLFTYNTLISLYCKKGMHYEALCIQDR...

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_013452
TK1151 IDTkA02G495240
OH-1004 IDLXL04_013452
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)96.500
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_013452
LocationChr03:29873485-29875263 (-)
DescriptionSimilar to At5g38730: Pentatricopeptide repeat-containing protein At5g38730
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g38730 Pentatricopeptide repeat-containing protein At5g38730. No verified direct reference in this release
At5g55840 Pentatricopeptide repeat-containing protein At5g55840. No verified direct reference in this release
At1g09680 Putative pentatricopeptide repeat-containing protein At1g09680. No verified direct reference in this release
At5g39710 Pentatricopeptide repeat-containing protein At5g39710. No verified direct reference in this release
At5g01110 Pentatricopeptide repeat-containing protein At5g01110. 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_013452 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0005739 mitochondrion Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G09680
ath:AT5G38730
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.

Mitochondrion0.799
Rank 1 · LXL04_013452 · OH-1004
Plastid0.090
Rank 2 · LXL04_013452 · OH-1004
Nucleus0.056
Rank 3 · LXL04_013452 · OH-1004
Cytoplasm0.037
Rank 4 · LXL04_013452 · OH-1004
Cell membrane0.010
Rank 5 · LXL04_013452 · 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.

PF29070.1MSC6_N119-224 aa
PF23276.3TPR_24128-223 aa
PF17177.11PPR_long143-291 aa
PF13812.13PPR_3152-212 aa
PF13041.13PPR_2167-212 aa
PF13812.13PPR_3187-247 aa
PF12854.14PPR_1195-227 aa
PF13041.13PPR_2198-243 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_013452PF29070.1MSC6_N1192241.3e-2177.9
LXL04_013452PF23276.3TPR_241282232.3e-2796.2
LXL04_013452PF17177.11PPR_long1432918.3e-2794.7
LXL04_013452PF13812.13PPR_31522122.5e-50169.1
LXL04_013452PF13041.13PPR_21672123.5e-92303.1
LXL04_013452PF13812.13PPR_31872472.5e-50169.1
LXL04_013452PF12854.14PPR_11952271.2e-79262.4
LXL04_013452PF13041.13PPR_21982433.5e-92303.1
LXL04_013452PF01535.27PPR2022281.1e-68223.4
LXL04_013452PF13812.13PPR_32222792.5e-50169.1
LXL04_013452PF12854.14PPR_12302541.2e-79262.4
LXL04_013452PF13041.13PPR_22332793.5e-92303.1
LXL04_013452PF01535.27PPR2362661.1e-68223.4
LXL04_013452PF29070.1MSC6_N2373251.3e-2177.9
LXL04_013452PF13812.13PPR_32572982.5e-50169.1
LXL04_013452PF12854.14PPR_12652971.2e-79262.4

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
Q9FKR3Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g3873056.208%Swiss-Protstrong database homology
Q9LVQ5Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g5584030.902%Swiss-Protmoderate database homology
O04491Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At1g0968027.490%Swiss-Protweak database homology
Q9FIX3Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g3971029.659%Swiss-Protweak database homology
Q9LFC5Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g0111024.955%Swiss-Protweak database homology

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