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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_026632
Reference: OH-1004 Chr: Chr06 Coordinates: 505078-506610 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1533 bp · LXL04_026632|LXL04_026632|OH1004|cDNA

ATGAAGCAGCTGAAAGAAATCCATGCCCACACCCTGCGCAATGGCATAGATTTCACCAAATTCCTTATCACGAAGCTCATTGAAATCCCAAACATCCCTTACGCTCACAGACTGTTGGACCTTATTCCTCAACCGACCGTCTTCCACTATAACAAACTGATTCAAGCTTTGTCCTGGCATGGCCCTCACCACAAATGTTTTGCGATTTACACCCGAATGCGCCTCAACGGTTGCTCCCCTAACCAGCACTCCTTCACTTC...

CDS

Download CDS FASTA

1533 bp · LXL04_026632|LXL04_026632|OH1004|CDS

ATGAAGCAGCTGAAAGAAATCCATGCCCACACCCTGCGCAATGGCATAGATTTCACCAAATTCCTTATCACGAAGCTCATTGAAATCCCAAACATCCCTTACGCTCACAGACTGTTGGACCTTATTCCTCAACCGACCGTCTTCCACTATAACAAACTGATTCAAGCTTTGTCCTGGCATGGCCCTCACCACAAATGTTTTGCGATTTACACCCGAATGCGCCTCAACGGTTGCTCCCCTAACCAGCACTCCTTCACTTC...

Protein

Download Protein FASTA

510 aa · LXL04_026632|LXL04_026632|OH1004|PROTEIN

MKQLKEIHAHTLRNGIDFTKFLITKLIEIPNIPYAHRLLDLIPQPTVFHYNKLIQALSWHGPHHKCFAIYTRMRLNGCSPNQHSFTSLFAASATLNSPTQAEIVHAHLVKSGYEFDLYASTALVDMYGKLGRLACARQVFDKMPSKDLPTWNSLIAGYARNGDMEGALEVFDEMPVKNVVSWTAMISGYSQNGEYGKSLKLFMEMEKKKDVHPNEVTIASALPACSSLGAVEVGQRIERYARGRGYLKNLFVCNALLEMY...

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_026632
TK1151 IDTkA08G003580
OH-1004 IDLXL04_026632
Relationship / confidenceRbh High Identity Coverage Local Synteny Minor Chr Pair / Probable
Protein identity (%)99.800
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_026632
LocationChr06:505078-506610 (+)
DescriptionSimilar to PCMP-E20: Pentatricopeptide repeat-containing protein At5g08510
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g08510 Pentatricopeptide repeat-containing protein At5g08510. No verified direct reference in this release
At2g20540 Pentatricopeptide repeat-containing protein At2g20540. No verified direct reference in this release
At5g44230 Pentatricopeptide repeat-containing protein At5g44230. No verified direct reference in this release
At5g56310 Pentatricopeptide repeat-containing protein At5g56310. No verified direct reference in this release
At4g37380 Plays a major role in single RNA editing events in chloroplasts. 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_026632 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0006397 mRNA processing Biological Process
GO:0009451 RNA modification Biological Process
GO:0080156 mitochondrial mRNA modification Biological Process
GO:1900865 chloroplast RNA modification Biological Process
GO:0005576 extracellular region Cellular Component
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:AT2G20540
ath:AT4G37380
ath:AT5G08510
ath:AT5G44230
ath:AT5G56310
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.

Mitochondrion0.670
Rank 1 · LXL04_026632 · OH-1004
Plastid0.168
Rank 2 · LXL04_026632 · OH-1004
Nucleus0.065
Rank 3 · LXL04_026632 · OH-1004
Cytoplasm0.031
Rank 4 · LXL04_026632 · OH-1004
Cell membrane0.006
Rank 5 · LXL04_026632 · 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_245-91 aa
PF23276.3TPR_2448-142 aa
PF12854.14PPR_1147-174 aa
PF13041.13PPR_2148-179 aa
PF01535.27PPR150-178 aa
PF13041.13PPR_2177-222 aa
PF01535.27PPR180-208 aa
PF12854.14PPR_1279-308 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_026632PF13041.13PPR_245915e-54180.9
LXL04_026632PF23276.3TPR_24481422.3e-1350.9
LXL04_026632PF12854.14PPR_11471741.7e-34117.9
LXL04_026632PF13041.13PPR_21481795e-54180.9
LXL04_026632PF01535.27PPR1501788.2e-52170.6
LXL04_026632PF13041.13PPR_21772225e-54180.9
LXL04_026632PF01535.27PPR1802088.2e-52170.6
LXL04_026632PF12854.14PPR_12793081.7e-34117.9
LXL04_026632PF13041.13PPR_22813235e-54180.9
LXL04_026632PF01535.27PPR2843128.2e-52170.6
LXL04_026632PF20431.5E_motif3994616.4e-2071.9

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
Q9FNN7Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g0851053.663%Swiss-Protstrong database homology
Q9SIL5Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g2054040.000%Swiss-Protmoderate database homology
Q9FFG8Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g4423039.258%Swiss-Protmoderate database homology
Q9FMA1Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g5631036.768%Swiss-Protmoderate database homology
Q9SZT8Arabidopsis thalianaPentatricopeptide repeat-containing protein ELI1, chloroplastic37.013%Swiss-Protmoderate database homology

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