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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_012124
Reference: OH-1004 Chr: Chr03 Coordinates: 6919710-6921602 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1893 bp · LXL04_012124|LXL04_012124|OH1004|cDNA

ATGGTCTATGCAAGGGTTCTTTGTCATCTTGTTAAAGGTAAGGGCTTTTTAATATCCTCTTCTTTGGCATACCTCTCGTCGCTTCTTCATTCTATGCATGTTGACTATACTGATCCAAAATACCTCTCGCATCAAACGATTTTGTCTCTTAGAAATAGTTCCTCTGTTCCCCAAATCACCAAGCTCGATGACGCCCTCCACCTGTTTGATCAAATGCTTCACAGACAACCTCGACCTTCAATTTACCAACTTACCAAACA...

CDS

Download CDS FASTA

1893 bp · LXL04_012124|LXL04_012124|OH1004|CDS

ATGGTCTATGCAAGGGTTCTTTGTCATCTTGTTAAAGGTAAGGGCTTTTTAATATCCTCTTCTTTGGCATACCTCTCGTCGCTTCTTCATTCTATGCATGTTGACTATACTGATCCAAAATACCTCTCGCATCAAACGATTTTGTCTCTTAGAAATAGTTCCTCTGTTCCCCAAATCACCAAGCTCGATGACGCCCTCCACCTGTTTGATCAAATGCTTCACAGACAACCTCGACCTTCAATTTACCAACTTACCAAACA...

Protein

Download Protein FASTA

630 aa · LXL04_012124|LXL04_012124|OH1004|PROTEIN

MVYARVLCHLVKGKGFLISSSLAYLSSLLHSMHVDYTDPKYLSHQTILSLRNSSSVPQITKLDDALHLFDQMLHRQPRPSIYQLTKQITAIVKMEHYSTALSLFKKINSMGIPSDLYAINISINCHCRLLQINHGFALLATIFKQGHPPNLTTYTTLINGLVLADQVFEAVELFKKLLKTKTCEPNQVMYGTIINGLCKAGHVTRALELLRFMESSSCKPHIEQYNNIIDTLCKDNMVDDALNLSTKMTEKGFKPNIYTY...

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_012124
TK1151 IDTkA02G586350
OH-1004 IDLXL04_012124
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)100.000
Protein coverage (%)TK1151 100.000 / OH-1004 88.730
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_012124
LocationChr03:6919710-6921602 (-)
DescriptionSimilar to At1g62930: Pentatricopeptide repeat-containing protein At1g62930, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g62930 Pentatricopeptide repeat-containing protein At1g62930, chloroplastic. No verified direct reference in this release
At1g62670 Pentatricopeptide repeat-containing protein At1g62670, mitochondrial. No verified direct reference in this release
At1g62910 Pentatricopeptide repeat-containing protein At1g62910. No verified direct reference in this release
At1g12700 Putative pentatricopeptide repeat-containing protein At1g12700, mitochondrial. 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_012124 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0000966 RNA 5'-end processing Biological Process
GO:0006397 mRNA processing Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G62670
ath:AT1G62930
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.

Mitochondrion0.763
Rank 1 · LXL04_012124 · OH-1004
Plastid0.106
Rank 2 · LXL04_012124 · OH-1004
Nucleus0.047
Rank 3 · LXL04_012124 · OH-1004
Cytoplasm0.043
Rank 4 · LXL04_012124 · OH-1004
Cell membrane0.009
Rank 5 · LXL04_012124 · 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_2117-161 aa
PF12854.14PPR_1146-176 aa
PF13041.13PPR_2149-187 aa
PF01535.27PPR153-178 aa
PF17177.11PPR_long167-265 aa
PF23276.3TPR_24176-271 aa
PF13812.13PPR_3181-232 aa
PF12854.14PPR_1182-214 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_012124PF13041.13PPR_21171615.5e-128417.7
LXL04_012124PF12854.14PPR_11461766.7e-110359.2
LXL04_012124PF13041.13PPR_21491875.5e-128417.7
LXL04_012124PF01535.27PPR1531787.4e-88283.6
LXL04_012124PF17177.11PPR_long1672651.4e-36126.6
LXL04_012124PF23276.3TPR_241762718.2e-35120.3
LXL04_012124PF13812.13PPR_31812323.9e-65216.5
LXL04_012124PF12854.14PPR_11822146.7e-110359.2
LXL04_012124PF13041.13PPR_21852205.5e-128417.7
LXL04_012124PF01535.27PPR1882187.4e-88283.6
LXL04_012124PF12854.14PPR_12172486.7e-110359.2
LXL04_012124PF29070.1MSC6_N2203511.9e-29103.7
LXL04_012124PF13041.13PPR_22252685.5e-128417.7
LXL04_012124PF17177.11PPR_long2373341.4e-36126.6
LXL04_012124PF13812.13PPR_32463033.9e-65216.5
LXL04_012124PF12854.14PPR_12512846.7e-110359.2

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
Q9LQ14Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g62930, chloroplastic39.356%Swiss-Protmoderate database homology
Q9SXD1Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g62670, mitochondrial35.922%Swiss-Protmoderate database homology
Q9LQ16Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g6291037.478%Swiss-Protmoderate database homology
P0C7Q7Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At1g12700, mitochondrial36.239%Swiss-Protmoderate database homology
Q9CAN0Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g63130, mitochondrial37.282%Swiss-Protmoderate database homology

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