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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_033245
Reference: OH-1004 Chr: Chr07 Coordinates: 39183615-39188605 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

3282 bp · LXL04_033245|LXL04_033245|OH1004|cDNA

ATGCATCACCACTTACTTCAACTCCTCCGGCTCTGTGCCAATCGCCGCCTCACATCTCACGGCAAGTCTCTCCATGCCCGCATCCTCAATCTCGGTCTCGACAGCTATGGAGCCCTTCCCAACACACTCATTTCTATGTACGGCAAGTGCGGCCTCATCAACGACGCCGTccaactgttcgacgaaatgcctcaacGAGACCTAGTTTCATGGGCTTCTATTCTCACTGCTTACAATCAATCCAACCTCCCTAACCGTGC...

CDS

Download CDS FASTA

3282 bp · LXL04_033245|LXL04_033245|OH1004|CDS

ATGCATCACCACTTACTTCAACTCCTCCGGCTCTGTGCCAATCGCCGCCTCACATCTCACGGCAAGTCTCTCCATGCCCGCATCCTCAATCTCGGTCTCGACAGCTATGGAGCCCTTCCCAACACACTCATTTCTATGTACGGCAAGTGCGGCCTCATCAACGACGCCGTCCAACTGTTCGACGAAATGCCTCAACGAGACCTAGTTTCATGGGCTTCTATTCTCACTGCTTACAATCAATCCAACCTCCCTAACCGTGC...

Protein

Download Protein FASTA

1093 aa · LXL04_033245|LXL04_033245|OH1004|PROTEIN

MHHHLLQLLRLCANRRLTSHGKSLHARILNLGLDSYGALPNTLISMYGKCGLINDAVQLFDEMPQRDLVSWASILTAYNQSNLPNRALSLFPLMSTRDCLQPDHFVFATLVNSCAAMNALQIGNQLHAQIILSPFSSDDVVKSSLVDMYAKCGSVDAARAVFETISSKNPISWTAMISGYARSGRKSDAIDLLRDMKESNLFSWTALISGLIQSGHIVSAFHLFIEMRKEGIKITDPFILSTIIVASANLSALELGKQVH...

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_033245
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_033245
LocationChr07:39183615-39188605 (+)
DescriptionSimilar to PCMP-H13: Pentatricopeptide repeat-containing protein At4g14050, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g14050 Involved in C-to-U editing of mitochondrial RNA.
The DYW Subgroup PPR Protein MEF35 Targets RNA Editing Sites in the Mitochondrial rpl16, nad4 and cob mRNAs in Arabidopsis thaliana.2015 · DOI: 10.1371/journal.pone.0140680
At2g22070 Pentatricopeptide repeat-containing protein At2g22070. No verified direct reference in this release
At1g25360 Pentatricopeptide repeat-containing protein At1g25360. No verified direct reference in this release
At4g02750 Pentatricopeptide repeat-containing protein At4g02750. No verified direct reference in this release
At1g68930 Putative pentatricopeptide repeat-containing protein At1g68930. 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_033245 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0009451 RNA modification Biological Process
GO:0016554 cytidine to uridine editing 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:AT1G25360
ath:AT2G22070
ath:AT4G14050
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.

Nucleus0.745
Rank 1 · LXL04_033245 · OH-1004
Plastid0.106
Rank 2 · LXL04_033245 · OH-1004
Cytoplasm0.105
Rank 3 · LXL04_033245 · OH-1004
Mitochondrion0.070
Rank 4 · LXL04_033245 · OH-1004
Cell membrane0.018
Rank 5 · LXL04_033245 · 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.

PF01535.27PPR41-67 aa
PF13041.13PPR_241-67 aa
PF12854.14PPR_141-63 aa
PF13041.13PPR_2169-201 aa
PF01535.27PPR171-200 aa
PF13041.13PPR_2200-235 aa
PF01535.27PPR202-232 aa
PF13041.13PPR_2301-349 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_033245PF01535.27PPR41675.5e-55180.6
LXL04_033245PF13041.13PPR_241676.3e-52174.2
LXL04_033245PF12854.14PPR_141636.1e-37125.8
LXL04_033245PF13041.13PPR_21692016.3e-52174.2
LXL04_033245PF01535.27PPR1712005.5e-55180.6
LXL04_033245PF13041.13PPR_22002356.3e-52174.2
LXL04_033245PF01535.27PPR2022325.5e-55180.6
LXL04_033245PF13041.13PPR_23013496.3e-52174.2
LXL04_033245PF01535.27PPR3043335.5e-55180.6
LXL04_033245PF29070.1MSC6_N3123989e-0832.3
LXL04_033245PF17177.11PPR_long3184321.9e-1041.2
LXL04_033245PF12854.14PPR_13704006.1e-37125.8
LXL04_033245PF20431.5E_motif4214803.6e-1556.7
LXL04_033245PF14432.13DYW_deaminase5176082.2e-38130.7
LXL04_033245PF00447.24HSF_DNA-bind6897781.2e-28100.3

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
O23266Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g14050, mitochondrial58.484%Swiss-Protmoderate database homology
Q9SHZ8Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g2207037.461%Swiss-Protmoderate database homology
Q9FRI5Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g2536037.981%Swiss-Protmoderate database homology
Q9SY02Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g0275038.556%Swiss-Protmoderate database homology
Q9CAA8Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At1g6893037.165%Swiss-Protmoderate database homology

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