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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_023959
Reference: OH-1004 Chr: Chr05 Coordinates: 75707859-75711234 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2817 bp · LXL04_023959|LXL04_023959|OH1004|cDNA

ATGGGGAGTATTTTCAAAAGTCTTTCTGTTATAAAAAATCCAATAAAAAGCTTTGTTGGCTTCATTGAAGCAAACATTTCAGTCTTAAAACAGTGCACAAAACAGCGTTTGATCACAGAAGGCCAAGTTCTCCATGGCCATTTGTACAAAATTGGCATTTCATCACATAGACATGTAGCAGTCAAACTACTCATCATGTATCTAGATTTCAGAAAATCAGCTGAAGTTGACCAATTACTTAAAGATTATGATGGATTCGA...

CDS

Download CDS FASTA

2817 bp · LXL04_023959|LXL04_023959|OH1004|CDS

ATGGGGAGTATTTTCAAAAGTCTTTCTGTTATAAAAAATCCAATAAAAAGCTTTGTTGGCTTCATTGAAGCAAACATTTCAGTCTTAAAACAGTGCACAAAACAGCGTTTGATCACAGAAGGCCAAGTTCTCCATGGCCATTTGTACAAAATTGGCATTTCATCACATAGACATGTAGCAGTCAAACTACTCATCATGTATCTAGATTTCAGAAAATCAGCTGAAGTTGACCAATTACTTAAAGATTATGATGGATTCGA...

Protein

Download Protein FASTA

938 aa · LXL04_023959|LXL04_023959|OH1004|PROTEIN

MGSIFKSLSVIKNPIKSFVGFIEANISVLKQCTKQRLITEGQVLHGHLYKIGISSHRHVAVKLLIMYLDFRKSAEVDQLLKDYDGFDMIVHNCLISANVDWGNVDEARRLFDEMPERNEVSWTALISGYLKYGRVDESMWLFQRNPFQNVISWTAAISGLLSNGMHLNSIHLFLEMLKSGVMPNNVTLVSIVRASTEMVDFTMGLTALSLSIKLGYEDDVSVCNSLITFSLRLGKLEMARLIFEKMGKRDVISWTAILDM...

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_023959
TK1151 IDTkAUNG018690
OH-1004 IDLXL04_023959
Relationship / confidenceRbh Sequence Supported / Probable
Protein identity (%)98.800
Protein coverage (%)TK1151 99.041 / OH-1004 76.759
Coverage and evidence

Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.

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_023959
LocationChr05:75707859-75711234 (+)
DescriptionSimilar to PCMP-H41: Pentatricopeptide repeat-containing protein At2g22070
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g22070 Pentatricopeptide repeat-containing protein At2g22070. No verified direct reference in this release
At2g13600 Pentatricopeptide repeat-containing protein At2g13600. 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
At1g77010 Putative pentatricopeptide repeat-containing protein At1g77010, mitochondrial. 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_023959 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0009451 RNA modification Biological Process
GO:0010182 sugar mediated signaling pathway 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:AT2G13600
ath:AT2G22070
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_023959 · OH-1004
Plastid0.283
Rank 2 · LXL04_023959 · OH-1004
Nucleus0.045
Rank 3 · LXL04_023959 · OH-1004
Cytoplasm0.034
Rank 4 · LXL04_023959 · OH-1004
Cell membrane0.007
Rank 5 · LXL04_023959 · 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.

PF01535.27PPR90-118 aa
PF01535.27PPR120-144 aa
PF13041.13PPR_2149-193 aa
PF13041.13PPR_2249-281 aa
PF01535.27PPR252-281 aa
PF13041.13PPR_2281-328 aa
PF01535.27PPR283-313 aa
PF29070.1MSC6_N285-375 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_023959PF01535.27PPR901186.5e-81261.8
LXL04_023959PF01535.27PPR1201446.5e-81261.8
LXL04_023959PF13041.13PPR_21491937.3e-79260.4
LXL04_023959PF13041.13PPR_22492817.3e-79260.4
LXL04_023959PF01535.27PPR2522816.5e-81261.8
LXL04_023959PF13041.13PPR_22813287.3e-79260.4
LXL04_023959PF01535.27PPR2833136.5e-81261.8
LXL04_023959PF29070.1MSC6_N2853751.4e-1867.9
LXL04_023959PF13041.13PPR_23814127.3e-79260.4
LXL04_023959PF01535.27PPR3844116.5e-81261.8
LXL04_023959PF13041.13PPR_24134617.3e-79260.4
LXL04_023959PF13041.13PPR_25145517.3e-79260.4
LXL04_023959PF12854.14PPR_15145422.2e-42143.2
LXL04_023959PF29070.1MSC6_N5156111.4e-1867.9
LXL04_023959PF01535.27PPR5165446.5e-81261.8
LXL04_023959PF17177.11PPR_long5316365.1e-1246.3

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
Q9SHZ8Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g2207034.340%Swiss-Protmoderate database homology
Q9SIT7Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g1360032.222%Swiss-Protmoderate database homology
Q9FRI5Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g2536033.543%Swiss-Protmoderate database homology
Q9SY02Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g0275033.333%Swiss-Protmoderate database homology
O49287Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At1g77010, mitochondrial31.791%Swiss-Protmoderate database homology

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