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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_010117
Reference: OH-1004 Chr: Chr02 Coordinates: 140425729-140427042 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1314 bp · LXL04_010117|LXL04_010117|OH1004|cDNA

ATGTCTTCCGCCGCTTACAGCCGTCTCCACGGCATCTTCAAGAGCAGTACCGCCACCGGCACAGTTGCACCCACCTCGGCCTCCACCTCCACCTCGGCCGCTAGCACCACCATCACCACTACGAAGAAAATAGTAAAGGAAAAGATAAAGAGGCCCAAAAAAACCCCCGCCGTGCCCACAGCGCCCGCCGCAGCTGTCACCACCATCATCGCGCGACCCAAGAATGAAAACCTGGCCTTTCAGCCATTACCCATGACACA...

CDS

Download CDS FASTA

1314 bp · LXL04_010117|LXL04_010117|OH1004|CDS

ATGTCTTCCGCCGCTTACAGCCGTCTCCACGGCATCTTCAAGAGCAGTACCGCCACCGGCACAGTTGCACCCACCTCGGCCTCCACCTCCACCTCGGCCGCTAGCACCACCATCACCACTACGAAGAAAATAGTAAAGGAAAAGATAAAGAGGCCCAAAAAAACCCCCGCCGTGCCCACAGCGCCCGCCGCAGCTGTCACCACCATCATCGCGCGACCCAAGAATGAAAACCTGGCCTTTCAGCCATTACCCATGACACA...

Protein

Download Protein FASTA

437 aa · LXL04_010117|LXL04_010117|OH1004|PROTEIN

MSSAAYSRLHGIFKSSTATGTVAPTSASTSTSAASTTITTTKKIVKEKIKRPKKTPAVPTAPAAAVTTIIARPKNENLAFQPLPMTQLTTSLGNLKSFIEQFKRASNLGPFRYSHKYYDDVVSHLARHKQHSYITEILEHQKRYETDMSKEPFVARLINLYGKSRMYDNARKLFDEMPERNCPRTVLSANALLTACVNSNRFNEMPELVKELREEFSIDPDDVSYNIVIKAFCETDAIDSALLVANEMEKSGFKCNLYTY...

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_010117
TK1151 IDTkA03G499310
OH-1004 IDLXL04_010117
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)100.000
Protein coverage (%)TK1151 100.000 / OH-1004 100.000
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_010117
LocationChr02:140425729-140427042 (-)
DescriptionSimilar to At1g55890: Pentatricopeptide repeat-containing protein At1g55890, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g55890 Small ribosomal subunit protein mS78 (rPPR3a). No verified direct reference in this release
At3g13150 Pentatricopeptide repeat-containing protein At3g13150. No verified direct reference in this release
At3g13160 Small ribosomal subunit protein mS79 (rPPR3b). No verified direct reference in this release
At1g61870 May be involved in translation through its association with polysomes. No verified direct reference in this release
At4g36680 Small ribosomal subunit protein mL103 (rPPR7). 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_010117 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006396 RNA processing Biological Process
GO:0007005 mitochondrion organization Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0005743 mitochondrial inner membrane Cellular Component
GO:0005829 cytosol Cellular Component
GO:0005840 ribosome Cellular Component
GO:1990904 ribonucleoprotein complex Cellular Component
GO:0000166 nucleotide binding Molecular Function
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G55890
ath:AT1G61870
ath:AT3G13150
ath:AT3G13160
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.

Mitochondrion0.836
Rank 1 · LXL04_010117 · OH-1004
Plastid0.100
Rank 2 · LXL04_010117 · OH-1004
Nucleus0.049
Rank 3 · LXL04_010117 · OH-1004
Cytoplasm0.033
Rank 4 · LXL04_010117 · OH-1004
Cell membrane0.011
Rank 5 · LXL04_010117 · 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.

PF29070.1MSC6_N122-281 aa
PF17177.11PPR_long136-271 aa
PF13041.13PPR_2157-198 aa
PF01535.27PPR157-182 aa
PF13041.13PPR_2185-233 aa
PF12854.14PPR_1218-249 aa
PF13041.13PPR_2220-268 aa
PF29070.1MSC6_N229-315 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_010117PF29070.1MSC6_N1222811e-1351.9
LXL04_010117PF17177.11PPR_long1362714.5e-1246.5
LXL04_010117PF13041.13PPR_21571982.1e-67223.7
LXL04_010117PF01535.27PPR1571821.1e-36123.2
LXL04_010117PF13041.13PPR_21852332.1e-67223.7
LXL04_010117PF12854.14PPR_12182491.5e-30105.4
LXL04_010117PF13041.13PPR_22202682.1e-67223.7
LXL04_010117PF29070.1MSC6_N2293151e-1351.9
LXL04_010117PF13812.13PPR_32442973e-2898.4
LXL04_010117PF23276.3TPR_242443528.2e-1452.4
LXL04_010117PF13041.13PPR_22583022.1e-67223.7
LXL04_010117PF01535.27PPR2582871.1e-36123.2
LXL04_010117PF17177.11PPR_long2723774.5e-1246.5
LXL04_010117PF12854.14PPR_12863191.5e-30105.4
LXL04_010117PF13041.13PPR_22903392.1e-67223.7
LXL04_010117PF13812.13PPR_33143693e-2898.4

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
Q9LG23Arabidopsis thalianaSmall ribosomal subunit protein mS78 (rPPR3a)39.633%Swiss-Protmoderate database homology
Q9LK58Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g1315037.819%Swiss-Protmoderate database homology
Q9LK57Arabidopsis thalianaSmall ribosomal subunit protein mS79 (rPPR3b)40.642%Swiss-Protmoderate database homology
Q8LE47Arabidopsis thalianaSmall ribosomal subunit protein mS86 (rPPR1)33.841%Swiss-Protmoderate database homology
Q9M065Arabidopsis thalianaSmall ribosomal subunit protein mL103 (rPPR7)31.210%Swiss-Protmoderate database homology

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