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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_035431
Reference: OH-1004 Chr: Chr08 Coordinates: 22425147-22429578 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

4359 bp · LXL04_035431|LXL04_035431|OH1004|cDNA

ATGTCATTCACGTCTGGAATCTTGGCTTTTGCTGCACCTTCGCCAACACTAAACGCCATTAACGATACATCGAAGGTACGCAAAACCATTACTTCTCATGTTTCCTGCTCAACCTCTTCTTCTGCCGTTACAACCATCGAACAGCAAGAACCGTCCAAGAAATTTAGCTACAGCAGAGCATCTCCATCAGTCAGATGGCCTAACCGTAAAGAACCCGCCGATAATCATAACTCAGACAAAACGCAGTTCCCAATTTCACC...

CDS

Download CDS FASTA

4359 bp · LXL04_035431|LXL04_035431|OH1004|CDS

ATGTCATTCACGTCTGGAATCTTGGCTTTTGCTGCACCTTCGCCAACACTAAACGCCATTAACGATACATCGAAGGTACGCAAAACCATTACTTCTCATGTTTCCTGCTCAACCTCTTCTTCTGCCGTTACAACCATCGAACAGCAAGAACCGTCCAAGAAATTTAGCTACAGCAGAGCATCTCCATCAGTCAGATGGCCTAACCGTAAAGAACCCGCCGATAATCATAACTCAGACAAAACGCAGTTCCCAATTTCACC...

Protein

Download Protein FASTA

1452 aa · LXL04_035431|LXL04_035431|OH1004|PROTEIN

MSFTSGILAFAAPSPTLNAINDTSKVRKTITSHVSCSTSSSAVTTIEQQEPSKKFSYSRASPSVRWPNRKEPADNHNSDKTQFPISPTNPKIDVFVHEPLTEVEGETAPLEENNETLEYSGRNSRGVAKKMTKLALKRAKDWRQRVQFLTDRILGLKSHEFVADVLDDRQVQMTPTDFCFLVKGIGKSNWQRALEVYEWLNLRKWYSPNARMLATILGVLGKANQEALAMEIFHRSEEAIDSSVQVYNAMMGVYARNGRF...

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_035431
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_035431
LocationChr08:22425147-22429578 (-)
DescriptionSimilar to EMB1270: Pentatricopeptide repeat-containing protein At3g18110, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g18110 May play a role in embryogenesis. No verified direct reference in this release
At5g02860 Pentatricopeptide repeat-containing protein At5g02860. No verified direct reference in this release
At4g31850 Plays a role in the stabilization of the primary polycistronic transcript of the petL operon encoding subunits of the cytochrome b6-f complex.
PPR motifs of the nucleus-encoded factor, PGR3, function in the selective and distinct steps of chloroplast gene expression in Arabidopsis.2004 · DOI: 10.1111/j.1365-313x.2004.02035.x
At1g74850 Involved in plastid gene expression.
pTAC2, -6, and -12 are components of the transcriptionally active plastid chromosome that are required for plastid gene expression.2006 · DOI: 10.1105/tpc.105.036392

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_035431 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0009793 embryo development ending in seed dormancy Biological Process
GO:0031425 chloroplast RNA processing Biological Process
GO:0009507 chloroplast Cellular Component
GO:0009534 chloroplast thylakoid Cellular Component
GO:0009570 chloroplast stroma Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT3G18110
ath:AT5G02860
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.

Plastid0.601
Rank 1 · LXL04_035431 · OH-1004
Mitochondrion0.255
Rank 2 · LXL04_035431 · OH-1004
Nucleus0.077
Rank 3 · LXL04_035431 · OH-1004
Cytoplasm0.027
Rank 4 · LXL04_035431 · OH-1004
Cell membrane0.013
Rank 5 · LXL04_035431 · 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.

PF23276.3TPR_24214-342 aa
PF17177.11PPR_long222-365 aa
PF13812.13PPR_3240-288 aa
PF13041.13PPR_2244-288 aa
PF01535.27PPR246-274 aa
PF29070.1MSC6_N294-375 aa
PF13041.13PPR_2297-327 aa
PF17177.11PPR_long300-438 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_035431PF23276.3TPR_242143423.3e-49166.9
LXL04_035431PF17177.11PPR_long2223652.3e-48165.1
LXL04_035431PF13812.13PPR_32402881e-88292.1
LXL04_035431PF13041.13PPR_22442881.9e-124406.4
LXL04_035431PF01535.27PPR2462745.5e-105337.3
LXL04_035431PF29070.1MSC6_N2943753.2e-50172.0
LXL04_035431PF13041.13PPR_22973271.9e-124406.4
LXL04_035431PF17177.11PPR_long3004382.3e-48165.1
LXL04_035431PF13812.13PPR_33033611e-88292.1
LXL04_035431PF12854.14PPR_13113431.7e-82271.5
LXL04_035431PF13041.13PPR_23143631.9e-124406.4
LXL04_035431PF01535.27PPR3173475.5e-105337.3
LXL04_035431PF12854.14PPR_13473751.7e-82271.5
LXL04_035431PF23276.3TPR_243524473.3e-49166.9
LXL04_035431PF13041.13PPR_23533981.9e-124406.4
LXL04_035431PF01535.27PPR3533825.5e-105337.3

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
Q5G1S8Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g18110, chloroplastic60.945%Swiss-Protstrong database homology
Q9LYZ9Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g0286025.214%Swiss-Protweak database homology
Q9SZ52Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g31850, chloroplastic22.515%Swiss-Protweak database homology
Q9S7Q2Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g74850, chloroplastic27.545%Swiss-Protweak database homology

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