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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_027481
Reference: OH-1004 Chr: Chr06 Coordinates: 16908746-16910482 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1737 bp · LXL04_027481|LXL04_027481|OH1004|cDNA

ATGATTAGGAAATTCAAAGCTTCCCAATGGTCGTTCGATATTTCTCGTACAATCTTAAGCACAAAAGTCACACAATCCTCGAAATCTTTAACAGTTATCACGAATCATGTCAAACAAAGTACACCTGCTGCATACGTCCCCATAACTTCTGATCACCTCAAAAACCAAAGAACCAATGGTGCTCCAAACAAACTCTCTTACCCAGATGTTTATTCGTGCACTAAGATAATCCAGGGACATCTGAGGAACAATCGGCTTAA...

CDS

Download CDS FASTA

1737 bp · LXL04_027481|LXL04_027481|OH1004|CDS

ATGATTAGGAAATTCAAAGCTTCCCAATGGTCGTTCGATATTTCTCGTACAATCTTAAGCACAAAAGTCACACAATCCTCGAAATCTTTAACAGTTATCACGAATCATGTCAAACAAAGTACACCTGCTGCATACGTCCCCATAACTTCTGATCACCTCAAAAACCAAAGAACCAATGGTGCTCCAAACAAACTCTCTTACCCAGATGTTTATTCGTGCACTAAGATAATCCAGGGACATCTGAGGAACAATCGGCTTAA...

Protein

Download Protein FASTA

578 aa · LXL04_027481|LXL04_027481|OH1004|PROTEIN

MIRKFKASQWSFDISRTILSTKVTQSSKSLTVITNHVKQSTPAAYVPITSDHLKNQRTNGAPNKLSYPDVYSCTKIIQGHLRNNRLNHALKLFDEMPVRDQVTWNSMIKGCFDCDNLQLGFKLFDEMPEKNVISWTTMVNGLLTYGRIETAENFFKDMPLKDEPAYNSMIYGYLTNGRVEDAVKLFDKMPNRSVISWTSMIKGLDLAGKSKDSLFFFKKMLLTSIQPTAFTFSSAITACTNEKDFHLGLKIHGHVVKLGY...

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_027481
TK1151 IDTkA07G061060
OH-1004 IDLXL04_027481
Relationship / confidenceRbh Sequence Supported / Probable
Protein identity (%)94.100
Protein coverage (%)TK1151 98.416 / OH-1004 87.889
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_027481
LocationChr06:16908746-16910482 (+)
DescriptionSimilar to PCMP-H49: Pentatricopeptide repeat-containing protein At5g46460, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g46460 Pentatricopeptide repeat-containing protein At5g46460, mitochondrial. No verified direct reference in this release
At4g02750 Pentatricopeptide repeat-containing protein At4g02750. No verified direct reference in this release
At2g13600 Pentatricopeptide repeat-containing protein At2g13600. No verified direct reference in this release
At1g09410 Pentatricopeptide repeat-containing protein At1g09410, mitochondrial. No verified direct reference in this release
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_027481 · 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:0010214 seed coat development Biological Process
GO:0080156 mitochondrial mRNA modification Biological Process
GO:0140547 acquisition of seed longevity 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:AT4G02750
ath:AT5G46460
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.

Mitochondrion0.663
Rank 1 · LXL04_027481 · OH-1004
Plastid0.167
Rank 2 · LXL04_027481 · OH-1004
Nucleus0.051
Rank 3 · LXL04_027481 · OH-1004
Cytoplasm0.033
Rank 4 · LXL04_027481 · OH-1004
Cell membrane0.006
Rank 5 · LXL04_027481 · 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_268-98 aa
PF13041.13PPR_2100-132 aa
PF01535.27PPR102-132 aa
PF13041.13PPR_2130-159 aa
PF13041.13PPR_2162-194 aa
PF01535.27PPR165-192 aa
PF12854.14PPR_1166-189 aa
PF13041.13PPR_2193-240 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_027481PF13041.13PPR_268983.5e-61203.8
LXL04_027481PF13041.13PPR_21001323.5e-61203.8
LXL04_027481PF01535.27PPR1021328.6e-62201.9
LXL04_027481PF13041.13PPR_21301593.5e-61203.8
LXL04_027481PF13041.13PPR_21621943.5e-61203.8
LXL04_027481PF01535.27PPR1651928.6e-62201.9
LXL04_027481PF12854.14PPR_11661899.4e-35118.8
LXL04_027481PF13041.13PPR_21932403.5e-61203.8
LXL04_027481PF13812.13PPR_32933368.8e-2071.3
LXL04_027481PF13041.13PPR_22943383.5e-61203.8
LXL04_027481PF01535.27PPR2963258.6e-62201.9
LXL04_027481PF13041.13PPR_23944453.5e-61203.8
LXL04_027481PF01535.27PPR3974268.6e-62201.9
LXL04_027481PF20431.5E_motif5145736.2e-1555.9

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
Q9FHF9Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g46460, mitochondrial53.019%Swiss-Protstrong database homology
Q9SY02Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g0275034.173%Swiss-Protmoderate database homology
Q9SIT7Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g1360031.959%Swiss-Protmoderate database homology
Q56XI1Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g09410, mitochondrial32.879%Swiss-Protmoderate database homology
O81767Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g3399033.072%Swiss-Protmoderate database homology

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