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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_026817
Reference: OH-1004 Chr: Chr06 Coordinates: 3377951-3380279 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1968 bp · LXL04_026817|LXL04_026817|OH1004|cDNA

ATGTGGCGATCGAAGGCAGTAGCAGCACGAACTGTTCGATCAGCTCACACGCAAGCTATCAGAGGACTCTCACATTCCAAATCATGTTCTCCACTATTGCATTCTAAGGTACATAAACCTCAAACCCTACCATCTTATCGACACCAAGAGAATTTCAGATCGAACACTATCAGATTCTTCAGTTCCAGCTCGACGGATTCAATTACTGATGTTGAAGCGAGTACCGGTAACAACACTGATGTGATTGACAAAAATGAAAA...

CDS

Download CDS FASTA

1968 bp · LXL04_026817|LXL04_026817|OH1004|CDS

ATGTGGCGATCGAAGGCAGTAGCAGCACGAACTGTTCGATCAGCTCACACGCAAGCTATCAGAGGACTCTCACATTCCAAATCATGTTCTCCACTATTGCATTCTAAGGTACATAAACCTCAAACCCTACCATCTTATCGACACCAAGAGAATTTCAGATCGAACACTATCAGATTCTTCAGTTCCAGCTCGACGGATTCAATTACTGATGTTGAAGCGAGTACCGGTAACAACACTGATGTGATTGACAAAAATGAAAA...

Protein

Download Protein FASTA

655 aa · LXL04_026817|LXL04_026817|OH1004|PROTEIN

MWRSKAVAARTVRSAHTQAIRGLSHSKSCSPLLHSKVHKPQTLPSYRHQENFRSNTIRFFSSSSTDSITDVEASTGNNTDVIDKNENNDSFSIDEMWKDGIEEANSVLEMDASDSETKESVEVVNEETHEVDIDELNRVISLLKIRDGDSDATTVSLESKLNDMNLNLSEEFVVSVLEAPYLPTENLIAFFKWATASNNEEAFHVTTRSLEALVRGVCTELKKKVAYSLWDLIKEFGVKENSVVTTQMLNSLISLFSRLG...

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_026817
TK1151 IDTkA07G009730
OH-1004 IDLXL04_026817
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)86.900
Protein coverage (%)TK1151 98.618 / OH-1004 32.672
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_026817
LocationChr06:3377951-3380279 (-)
DescriptionSimilar to At3g02650: Pentatricopeptide repeat-containing protein At3g02650, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g02650 Small ribosomal subunit protein mS80 (rPPR6). No verified direct reference in this release
At4g11690 Pentatricopeptide repeat-containing protein At4g11690. No verified direct reference in this release
At3g53700 May be involved in female gametophyte development. No verified direct reference in this release
At5g39710 Pentatricopeptide repeat-containing protein At5g39710. No verified direct reference in this release
At5g46100 Pentatricopeptide repeat-containing protein At5g46100. 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_026817 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0009737 response to abscisic acid Biological Process
GO:0080156 mitochondrial mRNA modification Biological Process
GO:0005737 cytoplasm Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0005840 ribosome Cellular Component
GO:0009507 chloroplast Cellular Component
GO:1990904 ribonucleoprotein complex Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT3G02650
ath:AT4G11690
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.

Mitochondrion0.800
Rank 1 · LXL04_026817 · OH-1004
Plastid0.143
Rank 2 · LXL04_026817 · OH-1004
Nucleus0.072
Rank 3 · LXL04_026817 · OH-1004
Cytoplasm0.041
Rank 4 · LXL04_026817 · OH-1004
Cell membrane0.016
Rank 5 · LXL04_026817 · 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_N224-338 aa
PF13041.13PPR_2249-293 aa
PF17177.11PPR_long392-551 aa
PF12854.14PPR_1427-457 aa
PF13041.13PPR_2430-477 aa
PF01535.27PPR432-460 aa
PF13812.13PPR_3452-509 aa
PF12854.14PPR_1459-490 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_026817PF29070.1MSC6_N2243383.6e-1556.7
LXL04_026817PF13041.13PPR_22492933.8e-50168.5
LXL04_026817PF17177.11PPR_long3925514.9e-1556.2
LXL04_026817PF12854.14PPR_14274577.4e-31106.3
LXL04_026817PF13041.13PPR_24304773.8e-50168.5
LXL04_026817PF01535.27PPR4324607.4e-34114.3
LXL04_026817PF13812.13PPR_34525091.7e-2073.6
LXL04_026817PF12854.14PPR_14594907.4e-31106.3
LXL04_026817PF01535.27PPR4664967.4e-34114.3
LXL04_026817PF13041.13PPR_24715123.8e-50168.5
LXL04_026817PF23276.3TPR_244845661.1e-1455.1
LXL04_026817PF12854.14PPR_14955277.4e-31106.3
LXL04_026817PF13041.13PPR_25015463.8e-50168.5
LXL04_026817PF01535.27PPR5015317.4e-34114.3

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
P0C896Arabidopsis thalianaSmall ribosomal subunit protein mS80 (rPPR6)47.348%Swiss-Protmoderate database homology
Q9T0D6Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g1169024.779%Swiss-Protweak database homology
Q9LFF1Arabidopsis thalianaPentatricopeptide repeat-containing protein At3g53700, chloroplastic28.066%Swiss-Protweak database homology
Q9FIX3Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g3971024.648%Swiss-Protweak database homology
Q9FNL2Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g4610026.698%Swiss-Protweak database homology

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