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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_029922
Reference: OH-1004 Chr: Chr06 Coordinates: 103406758-103407680 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

468 bp · LXL04_029922|LXL04_029922|OH1004|cDNA

ATGGAGCTCCAAGGGATTTCGAGAAACGTCGTGACATACAACACCCTAATCGACGGTCTCTGCAAAAACAGAAGAGCAGAAGAGGCCGCCATGCTCATGGACCAAATGATAATCGAAGGTCTAAAACCCGACAAATTCACTTACAATTCAATTCTCTCCCACTTCTGCAAAATGGGGGATATCAAACGCGCAACAGACACCGTCCAAGTTATGATCACAAACGGATGCGAACCAGATATCGTCACATACGGGACTCTAAT...

CDS

Download CDS FASTA

468 bp · LXL04_029922|LXL04_029922|OH1004|CDS

ATGGAGCTCCAAGGGATTTCGAGAAACGTCGTGACATACAACACCCTAATCGACGGTCTCTGCAAAAACAGAAGAGCAGAAGAGGCCGCCATGCTCATGGACCAAATGATAATCGAAGGTCTAAAACCCGACAAATTCACTTACAATTCAATTCTCTCCCACTTCTGCAAAATGGGGGATATCAAACGCGCAACAGACACCGTCCAAGTTATGATCACAAACGGATGCGAACCAGATATCGTCACATACGGGACTCTAAT...

Protein

Download Protein FASTA

155 aa · LXL04_029922|LXL04_029922|OH1004|PROTEIN

MELQGISRNVVTYNTLIDGLCKNRRAEEAAMLMDQMIIEGLKPDKFTYNSILSHFCKMGDIKRATDTVQVMITNGCEPDIVTYGTLIQGLCKAGKIDVACRLLRSIQGYFGHKYEHGNFGYLSIWNPCYWTDIKFYLDTKQTTNRFALLYRSCFR

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_029922
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_029922
LocationChr06:103406758-103407680 (-)
DescriptionSimilar to MEE40: Pentatricopeptide repeat-containing protein At3g53700, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g53700 May be involved in female gametophyte development. No verified direct reference in this release
At4g20090 May play a role in embryogenesis. No verified direct reference in this release
At1g12775 Pentatricopeptide repeat-containing protein At1g12775, mitochondrial. No verified direct reference in this release
At1g62720 Pentatricopeptide repeat-containing protein At1g62720. No verified direct reference in this release
At1g62910 Pentatricopeptide repeat-containing protein At1g62910. 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_029922 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0009793 embryo development ending in seed dormancy Biological Process
GO:0010239 chloroplast mRNA processing Biological Process
GO:0009507 chloroplast Cellular Component
GO:0042644 chloroplast nucleoid Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT3G53700
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.

Mitochondrion0.786
Rank 1 · LXL04_029922 · OH-1004
Plastid0.081
Rank 2 · LXL04_029922 · OH-1004
Nucleus0.076
Rank 3 · LXL04_029922 · OH-1004
Cytoplasm0.074
Rank 4 · LXL04_029922 · OH-1004
Cell membrane0.024
Rank 5 · LXL04_029922 · 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.

PF13812.13PPR_31-57 aa
PF17177.11PPR_long1-99 aa
PF23276.3TPR_244-105 aa
PF12854.14PPR_15-36 aa
PF13041.13PPR_28-57 aa
PF29070.1MSC6_N9-100 aa
PF01535.27PPR11-40 aa
PF13812.13PPR_332-88 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_029922PF13812.13PPR_31573e-1969.6
LXL04_029922PF17177.11PPR_long1992.1e-0628.0
LXL04_029922PF23276.3TPR_2441056.3e-0730.1
LXL04_029922PF12854.14PPR_15361.2e-40137.6
LXL04_029922PF13041.13PPR_28575e-41139.3
LXL04_029922PF29070.1MSC6_N91001.5e-0628.3
LXL04_029922PF01535.27PPR11404.6e-2483.6
LXL04_029922PF13812.13PPR_332883e-1969.6
LXL04_029922PF12854.14PPR_140711.2e-40137.6
LXL04_029922PF13041.13PPR_246925e-41139.3
LXL04_029922PF01535.27PPR46764.6e-2483.6
LXL04_029922PF12854.14PPR_1741041.2e-40137.6
LXL04_029922PF13041.13PPR_2781045e-41139.3
LXL04_029922PF01535.27PPR811064.6e-2483.6

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
Q9LFF1Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g53700, chloroplastic74.766%Swiss-Protmoderate database homology
O49436Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g2009048.421%Swiss-Protmoderate database homology
Q9LPX2Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g12775, mitochondrial41.284%Swiss-Protmoderate database homology
Q9SI78Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g6272031.373%Swiss-Protmoderate database homology
Q9LQ16Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g6291038.835%Swiss-Protmoderate database homology

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