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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_007572
Reference: OH-1004 Chr: Chr02 Coordinates: 52793277-52798538 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1782 bp · LXL04_007572|LXL04_007572|OH1004|cDNA

ATGCAGACAAGAAATGTCGGTCGTCGGTTGTGTATACAAGAAATGCAGATAAGGAAAGTAGAAATCAAACCTGTCAAAGGGGTACCGGAAGTGGTCGCCGGTCGTCGGTCGTCGAAGGAAAATAGCGAGACAGAAACGTGGTCGCCGGTCGTCGTTCGTCGGAGGAAAGCAGCGACAGAGACAGAGAAGTGGTCGCCGGACGTCGGAGGAACGCAGCGAGACAGAAACGTGGAGTGGAGTTCGTCGCCGATTGCCTTCGC...

CDS

Download CDS FASTA

1782 bp · LXL04_007572|LXL04_007572|OH1004|CDS

ATGCAGACAAGAAATGTCGGTCGTCGGTTGTGTATACAAGAAATGCAGATAAGGAAAGTAGAAATCAAACCTGTCAAAGGGGTACCGGAAGTGGTCGCCGGTCGTCGGTCGTCGAAGGAAAATAGCGAGACAGAAACGTGGTCGCCGGTCGTCGTTCGTCGGAGGAAAGCAGCGACAGAGACAGAGAAGTGGTCGCCGGACGTCGGAGGAACGCAGCGAGACAGAAACGTGGAGTGGAGTTCGTCGCCGATTGCCTTCGC...

Protein

Download Protein FASTA

593 aa · LXL04_007572|LXL04_007572|OH1004|PROTEIN

MQTRNVGRRLCIQEMQIRKVEIKPVKGVPEVVAGRRSSKENSETETWSPVVVRRRKAATETEKWSPDVGGTQRDRNVEWSSSPIAFASEWSSSPIAFASDCKTILAQKDDLQRTELRSNMQNLAKSSGGITKALQAFRLMKPTVYDYNSLVNCYLKSENVCLHDLSALYTEMNTLGLYPNASTFNTFLKGLNLLGESKNALWVTTEMCNYAFTPSFTSLSNLLKKCSDSMDLEEAITVLDLMMRLFKEASNCLNKMATDA...

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_007572
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_007572
LocationChr02:52793277-52798538 (-)
DescriptionSimilar to At1g64100: Pentatricopeptide repeat-containing protein At1g64100
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g64100 Pentatricopeptide repeat-containing protein At1g64100. No verified direct reference in this release
At1g62910 Pentatricopeptide repeat-containing protein At1g62910. No verified direct reference in this release
At3g53700 May be involved in female gametophyte development. No verified direct reference in this release
At1g12775 Pentatricopeptide repeat-containing protein At1g12775, mitochondrial. No verified direct reference in this release
At1g63330 Pentatricopeptide repeat-containing protein At1g63330. 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_007572 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0090617 mitochondrial mRNA 5'-end processing Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
KEGG gene cross-reference
ath:AT1G62910
ath:AT1G64100
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.

Mitochondrion0.643
Rank 1 · LXL04_007572 · OH-1004
Plastid0.169
Rank 2 · LXL04_007572 · OH-1004
Nucleus0.099
Rank 3 · LXL04_007572 · OH-1004
Cytoplasm0.072
Rank 4 · LXL04_007572 · OH-1004
Cell membrane0.024
Rank 5 · LXL04_007572 · 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_N101-290 aa
PF13041.13PPR_2142-191 aa
PF12854.14PPR_1263-293 aa
PF13041.13PPR_2264-312 aa
PF13812.13PPR_3265-311 aa
PF01535.27PPR268-297 aa
PF23276.3TPR_24269-328 aa
PF12854.14PPR_1295-324 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_007572PF29070.1MSC6_N1012909e-1658.7
LXL04_007572PF13041.13PPR_21421914.2e-56187.6
LXL04_007572PF12854.14PPR_12632932.8e-41139.6
LXL04_007572PF13041.13PPR_22643124.2e-56187.6
LXL04_007572PF13812.13PPR_32653118.7e-31106.5
LXL04_007572PF01535.27PPR2682979.9e-38126.5
LXL04_007572PF23276.3TPR_242693284.3e-2279.2
LXL04_007572PF12854.14PPR_12953242.8e-41139.6
LXL04_007572PF13041.13PPR_22993424.2e-56187.6
LXL04_007572PF29070.1MSC6_N3034299e-1658.7
LXL04_007572PF13041.13PPR_23694164.2e-56187.6
LXL04_007572PF13812.13PPR_33834158.7e-31106.5
LXL04_007572PF12854.14PPR_13994292.8e-41139.6
LXL04_007572PF01535.27PPR4064329.9e-38126.5
LXL04_007572PF13041.13PPR_24344744.2e-56187.6
LXL04_007572PF23276.3TPR_244415194.3e-2279.2

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
Q9SH60Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g6410027.130%Swiss-Protweak database homology
Q9LQ16Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g6291027.778%Swiss-Protweak database homology
Q9LFF1Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g53700, chloroplastic25.442%Swiss-Protweak database homology
Q9LPX2Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g12775, mitochondrial26.835%Swiss-Protweak database homology
Q9C8T7Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g6333027.778%Swiss-Protweak database homology

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