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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_031795
Reference: OH-1004 Chr: Chr07 Coordinates: 11455667-11457694 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2028 bp · LXL04_031795|LXL04_031795|OH1004|cDNA

ATGTTACCATCGCTTGTCACCTCCCTAAAGGAATCAGCAACTCAAAACAAGTTATCGAAAGCATTCAACCTTTTCTCTCTCATCATACAACAAACCCATCATCACCATGCCTCTTCGTCTGATTTCTTGTTGCAGTCATTGGCTTCTCTTTTTGCATGCTGTTCGCAATTCAAAGCAATTTCCCAAGGTAAACAACTACATGCGTATTTGGTTTCTTCGGGGTTCGAAAAATCCCCTGTTCTGGTTCCAAAGTTAGTCAC...

CDS

Download CDS FASTA

2028 bp · LXL04_031795|LXL04_031795|OH1004|CDS

ATGTTACCATCGCTTGTCACCTCCCTAAAGGAATCAGCAACTCAAAACAAGTTATCGAAAGCATTCAACCTTTTCTCTCTCATCATACAACAAACCCATCATCACCATGCCTCTTCGTCTGATTTCTTGTTGCAGTCATTGGCTTCTCTTTTTGCATGCTGTTCGCAATTCAAAGCAATTTCCCAAGGTAAACAACTACATGCGTATTTGGTTTCTTCGGGGTTCGAAAAATCCCCTGTTCTGGTTCCAAAGTTAGTCAC...

Protein

Download Protein FASTA

675 aa · LXL04_031795|LXL04_031795|OH1004|PROTEIN

MLPSLVTSLKESATQNKLSKAFNLFSLIIQQTHHHHASSSDFLLQSLASLFACCSQFKAISQGKQLHAYLVSSGFEKSPVLVPKLVTFYVDFNLFNDAYIITKSSKIRHPLPWNVLISGYVKAGLRKEGLSVYRKMVENGIIPDNFTYPSVLKACGEELDLGFGREVHESITNAGLEWNLFVHNALVFMYGKCGDLNIARKLFDQMPVTDEISWNSIISGYASHGIWSEAFDLFNQMQNQNVQVNIIIWNTITGGYLKTG...

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_031795
TK1151 IDTkA08G130590
OH-1004 IDLXL04_031795
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)98.900
Protein coverage (%)TK1151 97.653 / OH-1004 80.148
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_031795
LocationChr07:11455667-11457694 (-)
DescriptionSimilar to PCMP-E67: Pentatricopeptide repeat-containing protein At1g71490
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g71490 Pentatricopeptide repeat-containing protein At1g71490. No verified direct reference in this release
At1g22830 Pentatricopeptide repeat-containing protein At1g22830. No verified direct reference in this release
At5g16860 Pentatricopeptide repeat-containing protein At5g16860. No verified direct reference in this release
At1g08070 Involved in multiple sites RNA editing events in chloroplasts. No verified direct reference in this release
At1g15510 Regulates the RNA editing of the chloroplast transcript accD, and is essential for the early stages of chloroplast biogenesis.
AtECB2, a pentatricopeptide repeat protein, is required for chloroplast transcript accD RNA editing and early chloroplast biogenesis in Arabidopsis thaliana.2009 · DOI: 10.1111/j.1365-313x.2009.03930.x
Editing of accD and ndhF chloroplast transcripts is partially affected in the Arabidopsis vanilla cream1 mutant.2010 · DOI: 10.1007/s11103-010-9616-5
A point mutation in the pentatricopeptide repeat motif of the AtECB2 protein causes delayed chloroplast development.2011 · DOI: 10.1111/j.1744-7909.2011.01030.x

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_031795 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0009451 RNA 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:AT1G22830
ath:AT1G71490
ath:AT5G16860
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.

Mitochondrion0.631
Rank 1 · LXL04_031795 · OH-1004
Plastid0.200
Rank 2 · LXL04_031795 · OH-1004
Nucleus0.051
Rank 3 · LXL04_031795 · OH-1004
Cytoplasm0.033
Rank 4 · LXL04_031795 · OH-1004
Peroxisome0.005
Rank 5 · LXL04_031795 · 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_2113-155 aa
PF01535.27PPR113-141 aa
PF12854.14PPR_1175-206 aa
PF13041.13PPR_2210-246 aa
PF12854.14PPR_1210-238 aa
PF01535.27PPR212-241 aa
PF13041.13PPR_2345-390 aa
PF01535.27PPR347-377 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_031795PF13041.13PPR_21131555e-62206.5
LXL04_031795PF01535.27PPR1131418.6e-61198.8
LXL04_031795PF12854.14PPR_11752061e-33115.5
LXL04_031795PF13041.13PPR_22102465e-62206.5
LXL04_031795PF12854.14PPR_12102381e-33115.5
LXL04_031795PF01535.27PPR2122418.6e-61198.8
LXL04_031795PF13041.13PPR_23453905e-62206.5
LXL04_031795PF01535.27PPR3473778.6e-61198.8
LXL04_031795PF13041.13PPR_24464945e-62206.5
LXL04_031795PF13812.13PPR_34464939.7e-2793.6
LXL04_031795PF12854.14PPR_14474741e-33115.5
LXL04_031795PF01535.27PPR4494788.6e-61198.8
LXL04_031795PF20431.5E_motif5646252.9e-2073.0

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
Q9C9I6Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g7149055.030%Swiss-Protstrong database homology
Q4V389Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g2283050.855%Swiss-Protstrong database homology
Q9LFL5Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g1686035.569%Swiss-Protmoderate database homology
Q9LN01Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g08070, chloroplastic34.609%Swiss-Protmoderate database homology
Q9M9E2Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g15510, chloroplastic33.918%Swiss-Protmoderate database homology

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