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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_035863
Reference: OH-1004 Chr: Chr08 Coordinates: 30884356-30886089 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1734 bp · LXL04_035863|LXL04_035863|OH1004|cDNA

ATGGCCACCGCCGTCGAGCCGTTACTGCAAAAGTGCTCCACCCTCGCCCAAATTAAACAATTTCAAGCTCACCTCATCACCACCGGTATTTTCCAGTTTCAACCTTCTCCTCGTGCCAAATTCCTAGAAGTATGCTCCACCTCCTCTGCCGCAGCCAGCCTCCTCTACGCCGTCGAAATCTTCCGTCACATTGCGTCCCCCGTGACTAATGACTGGAACGCCATCATCCGCGGCCTCGCCCAGAGCCATCAACCAGCCGA...

CDS

Download CDS FASTA

1734 bp · LXL04_035863|LXL04_035863|OH1004|CDS

ATGGCCACCGCCGTCGAGCCGTTACTGCAAAAGTGCTCCACCCTCGCCCAAATTAAACAATTTCAAGCTCACCTCATCACCACCGGTATTTTCCAGTTTCAACCTTCTCCTCGTGCCAAATTCCTAGAAGTATGCTCCACCTCCTCTGCCGCAGCCAGCCTCCTCTACGCCGTCGAAATCTTCCGTCACATTGCGTCCCCCGTGACTAATGACTGGAACGCCATCATCCGCGGCCTCGCCCAGAGCCATCAACCAGCCGA...

Protein

Download Protein FASTA

577 aa · LXL04_035863|LXL04_035863|OH1004|PROTEIN

MATAVEPLLQKCSTLAQIKQFQAHLITTGIFQFQPSPRAKFLEVCSTSSAAASLLYAVEIFRHIASPVTNDWNAIIRGLAQSHQPADAVAFYRQGLRMLTCKPDALTCSFTLKACARALACNEAIQIHSQVIRFGFIADILLQTTLLDVYAKSGYLDNARKLFDEMSNRDVTCWNAMIAGLAQGNQPNEALQLFTRMRDLGFKPNEITVLGALSACAQLGVVREGENIYNYIKNQNLEKNEQVCNVVIDMFGKCGYVTKA...

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_035863
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_035863
LocationChr08:30884356-30886089 (-)
DescriptionSimilar to PCMP-H68: Pentatricopeptide repeat-containing protein At1g34160
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g34160 Pentatricopeptide repeat-containing protein At1g34160. No verified direct reference in this release
At4g21065 Pentatricopeptide repeat-containing protein At4g21065. No verified direct reference in this release
At3g56550 Pentatricopeptide repeat-containing protein At3g56550. No verified direct reference in this release
At5g06540 Pentatricopeptide repeat-containing protein At5g06540. No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
Os12g0270200 Involved in multiple sites RNA editing events in mitochondria.
Rice OGR1 encodes a pentatricopeptide repeat-DYW protein and is essential for RNA editing in mitochondria.2009 · DOI: 10.1111/j.1365-313x.2009.03909.x
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_035863 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0009451 RNA modification 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:0003729 mRNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT1G34160
ath:AT3G56550
ath:AT4G21065
ath:AT5G06540
dosa:Os12g0270200
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.

Mitochondrion0.624
Rank 1 · LXL04_035863 · OH-1004
Plastid0.221
Rank 2 · LXL04_035863 · OH-1004
Nucleus0.061
Rank 3 · LXL04_035863 · OH-1004
Cytoplasm0.036
Rank 4 · LXL04_035863 · OH-1004
Cell membrane0.006
Rank 5 · LXL04_035863 · 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_2144-172 aa
PF01535.27PPR144-170 aa
PF13041.13PPR_2169-217 aa
PF01535.27PPR173-202 aa
PF29070.1MSC6_N193-286 aa
PF17177.11PPR_long212-369 aa
PF13041.13PPR_2241-269 aa
PF13041.13PPR_2273-318 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_035863PF13041.13PPR_21441721.2e-45154.1
LXL04_035863PF01535.27PPR1441702.4e-44147.2
LXL04_035863PF13041.13PPR_21692171.2e-45154.1
LXL04_035863PF01535.27PPR1732022.4e-44147.2
LXL04_035863PF29070.1MSC6_N1932865.8e-1142.8
LXL04_035863PF17177.11PPR_long2123692e-0834.6
LXL04_035863PF13041.13PPR_22412691.2e-45154.1
LXL04_035863PF13041.13PPR_22733181.2e-45154.1
LXL04_035863PF01535.27PPR2743042.4e-44147.2
LXL04_035863PF20431.5E_motif3894501.4e-2177.2
LXL04_035863PF14432.13DYW_deaminase4875771.4e-36124.9

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
Q9FX24Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g3416055.746%Swiss-Protstrong database homology
A8MQA3Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g2106539.555%Swiss-Protmoderate database homology
Q9LXY5Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g5655037.564%Swiss-Protmoderate database homology
Q9FG16Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g0654038.322%Swiss-Protmoderate database homology
B8YEK4Oryza sativa subsp. japonicaPentatricopeptide repeat-containing protein OGR1, mitochondrial50.937%Swiss-Protstrong database homology

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