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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_032356
Reference: OH-1004 Chr: Chr07 Coordinates: 21256657-21260508 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2460 bp · LXL04_032356|LXL04_032356|OH1004|cDNA

ATGTTGATCACAGAAGACTTTTATATCAAAATCTTGGACAAGTGCCCAGATATCAAACAATTAAAAAAGATACATTGTAGGTTAATTATTGATGGAAATCTCGTCTCAGCATCGCATATTGCTCTGAAGTTAATGAAAGCTTATTCTGAATGTCGGCACATCGCAGTTACGCGCCAACTGTTCGATAAATCTCCTCAAAAAGATGTTGTCTTCTTCAATGTCATGATTAGAAGCTACGTAAGTAATGGATTCTACGAAAC...

CDS

Download CDS FASTA

2460 bp · LXL04_032356|LXL04_032356|OH1004|CDS

ATGTTGATCACAGAAGACTTTTATATCAAAATCTTGGACAAGTGCCCAGATATCAAACAATTAAAAAAGATACATTGTAGGTTAATTATTGATGGAAATCTCGTCTCAGCATCGCATATTGCTCTGAAGTTAATGAAAGCTTATTCTGAATGTCGGCACATCGCAGTTACGCGCCAACTGTTCGATAAATCTCCTCAAAAAGATGTTGTCTTCTTCAATGTCATGATTAGAAGCTACGTAAGTAATGGATTCTACGAAAC...

Protein

Download Protein FASTA

819 aa · LXL04_032356|LXL04_032356|OH1004|PROTEIN

MLITEDFYIKILDKCPDIKQLKKIHCRLIIDGNLVSASHIALKLMKAYSECRHIAVTRQLFDKSPQKDVVFFNVMIRSYVSNGFYETALRMYRNMLKFSITPDHFTVPQVLKACSMSENLIVGLQTHVAALKKGLHSNLYVGNGLITMYGKCNRLPEGRKVFDEMPSRDVVSWNSIVAAYAQNRMFDDALEVCKTMMQSSSLKPNAGTMASLSPAVTTSTSSTNVKFMNEMFMNHARESLISWNVMIAVYVNNSMPTDAV...

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_032356
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_032356
LocationChr07:21256657-21260508 (-)
DescriptionSimilar to PCMP-H77: Putative pentatricopeptide repeat-containing protein At3g49142
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g49142 Putative pentatricopeptide repeat-containing protein At3g49142. No verified direct reference in this release
At4g30700 Pentatricopeptide repeat-containing protein At4g30700. No verified direct reference in this release
At3g12770 Pentatricopeptide repeat-containing protein At3g12770. No verified direct reference in this release
At3g57430 Involved in RNA editing events in chloroplasts.
A study of new Arabidopsis chloroplast RNA editing mutants reveals general features of editing factors and their target sites.2009 · DOI: 10.1105/tpc.109.071472
At4g33990 Pentatricopeptide repeat-containing protein At4g33990. 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_032356 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0000963 mitochondrial RNA processing Biological Process
GO:0009451 RNA modification Biological Process
GO:0016554 cytidine to uridine editing Biological Process
GO:0080156 mitochondrial mRNA 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:AT3G12770
ath:AT3G49142
ath:AT4G30700
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.

Plastid0.484
Rank 1 · LXL04_032356 · OH-1004
Mitochondrion0.467
Rank 2 · LXL04_032356 · OH-1004
Nucleus0.043
Rank 3 · LXL04_032356 · OH-1004
Cytoplasm0.042
Rank 4 · LXL04_032356 · OH-1004
Peroxisome0.012
Rank 5 · LXL04_032356 · 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_267-114 aa
PF01535.27PPR70-98 aa
PF13041.13PPR_2168-209 aa
PF01535.27PPR171-199 aa
PF23276.3TPR_24173-266 aa
PF13041.13PPR_2240-285 aa
PF01535.27PPR241-271 aa
PF01535.27PPR314-340 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_032356PF13041.13PPR_2671142.9e-50168.9
LXL04_032356PF01535.27PPR70981.7e-47157.1
LXL04_032356PF13041.13PPR_21682092.9e-50168.9
LXL04_032356PF01535.27PPR1711991.7e-47157.1
LXL04_032356PF23276.3TPR_241732664.3e-1659.7
LXL04_032356PF13041.13PPR_22402852.9e-50168.9
LXL04_032356PF01535.27PPR2412711.7e-47157.1
LXL04_032356PF01535.27PPR3143401.7e-47157.1
LXL04_032356PF12854.14PPR_13143369.9e-2173.9
LXL04_032356PF13041.13PPR_23393872.9e-50168.9
LXL04_032356PF13812.13PPR_33403864.7e-2072.2
LXL04_032356PF01535.27PPR3423721.7e-47157.1
LXL04_032356PF20431.5E_motif4575198.6e-2277.9
LXL04_032356PF20430.4Eplus_motif5245483.1e-1143.5
LXL04_032356PF14432.13DYW_deaminase5556462.1e-40137.1
LXL04_032356PF29515.1Expansin_N6938101.5e-0732.3

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
P0C899Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At3g4914259.190%Swiss-Protstrong database homology
Q9SUH6Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g3070039.111%Swiss-Protmoderate database homology
Q9LTV8Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g1277039.143%Swiss-Protmoderate database homology
Q7Y211Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g57430, chloroplastic40.896%Swiss-Protmoderate database homology
O81767Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g3399038.235%Swiss-Protmoderate database homology

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