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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_026749
Reference: OH-1004 Chr: Chr06 Coordinates: 2438694-2445141 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2541 bp · LXL04_026749|LXL04_026749|OH1004|cDNA

atgtttaATTCACACAAAGCTTGGTATCATCGACATGTGTGTACAGAATCCGCTCGAACCTTTCACAAAGCTGTTAATTTATGTTTACCCGTAACCGAACCTGTCCACTACTCGAATCAGAAGCTAAACGATCTATGGAAATCAGGTCGAATCAAAGACGCACAacacctgttcgacgaaatgcctgaaaGAGACGAGTTCACCTGGAATACCATGATTGCAGGTTACGCAAATTCAGGGAAGGTAATTGAAGCACAAAA...

CDS

Download CDS FASTA

2541 bp · LXL04_026749|LXL04_026749|OH1004|CDS

ATGTTTAATTCACACAAAGCTTGGTATCATCGACATGTGTGTACAGAATCCGCTCGAACCTTTCACAAAGCTGTTAATTTATGTTTACCCGTAACCGAACCTGTCCACTACTCGAATCAGAAGCTAAACGATCTATGGAAATCAGGTCGAATCAAAGACGCACAACACCTGTTCGACGAAATGCCTGAAAGAGACGAGTTCACCTGGAATACCATGATTGCAGGTTACGCAAATTCAGGGAAGGTAATTGAAGCACAAAA...

Protein

Download Protein FASTA

846 aa · LXL04_026749|LXL04_026749|OH1004|PROTEIN

MFNSHKAWYHRHVCTESARTFHKAVNLCLPVTEPVHYSNQKLNDLWKSGRIKDAQHLFDEMPERDEFTWNTMIAGYANSGKVIEAQKLFNHTPNKTSITWSTLISGYCKLGHEHESMRLFSQMQYEGYKPSQFTLGSVLRMCSINGLLSRGEQVHGYTIKTQFDANVFVVTGLIDMYAQCRHVTEAKTLFKSMTFGKNNVTWTAMITGFSRNNDQIGAIECFRDMRSEGVEANQYTFPGVLTACGEIMDLRSGVQVHGCI...

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_026749
TK1151 IDTkA07G005560
OH-1004 IDLXL04_026749
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)88.300
Protein coverage (%)TK1151 94.332 / OH-1004 30.378
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_026749
LocationChr06:2438694-2445141 (+)
DescriptionSimilar to PCMP-H60: Pentatricopeptide repeat-containing protein At2g27610
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g27610 Pentatricopeptide repeat-containing protein At2g27610. No verified direct reference in this release
At3g02010 Putative pentatricopeptide repeat-containing protein At2g01510. No verified direct reference in this release
At4g13650 Pentatricopeptide repeat-containing protein At4g13650. No verified direct reference in this release
At5g16860 Pentatricopeptide repeat-containing protein At5g16860. No verified direct reference in this release
At1g11290 Involved in multiple sites RNA editing events in chloroplasts.
Pentatricopeptide repeat proteins with the DYW motif have distinct molecular functions in RNA editing and RNA cleavage in Arabidopsis chloroplasts.2009 · DOI: 10.1105/tpc.108.064667

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_026749 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)
GO:0009451 RNA modification Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT2G27610
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.

Mitochondrion0.665
Rank 1 · LXL04_026749 · OH-1004
Plastid0.210
Rank 2 · LXL04_026749 · OH-1004
Nucleus0.052
Rank 3 · LXL04_026749 · OH-1004
Cytoplasm0.040
Rank 4 · LXL04_026749 · OH-1004
Cell membrane0.007
Rank 5 · LXL04_026749 · 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.

PF12854.14PPR_164-90 aa
PF13041.13PPR_265-90 aa
PF01535.27PPR67-90 aa
PF13041.13PPR_296-142 aa
PF12854.14PPR_197-124 aa
PF01535.27PPR98-127 aa
PF13041.13PPR_2198-244 aa
PF01535.27PPR200-230 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
LXL04_026749PF12854.14PPR_164905.8e-54180.2
LXL04_026749PF13041.13PPR_265905.4e-81267.3
LXL04_026749PF01535.27PPR67903e-78253.5
LXL04_026749PF13041.13PPR_2961425.4e-81267.3
LXL04_026749PF12854.14PPR_1971245.8e-54180.2
LXL04_026749PF01535.27PPR981273e-78253.5
LXL04_026749PF13041.13PPR_21982445.4e-81267.3
LXL04_026749PF01535.27PPR2002303e-78253.5
LXL04_026749PF13041.13PPR_22993465.4e-81267.3
LXL04_026749PF01535.27PPR3013303e-78253.5
LXL04_026749PF01535.27PPR3844103e-78253.5
LXL04_026749PF13041.13PPR_24094565.4e-81267.3
LXL04_026749PF13812.13PPR_34104562.5e-31108.3
LXL04_026749PF01535.27PPR4124423e-78253.5
LXL04_026749PF13041.13PPR_25105585.4e-81267.3
LXL04_026749PF13812.13PPR_35115572.5e-31108.3

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
Q9ZUW3Arabidopsis thalianaPentatricopeptide repeat-containing protein At2g2761035.530%Swiss-Protmoderate database homology
Q9S7F4Arabidopsis thalianaPutative pentatricopeptide repeat-containing protein At2g0151034.718%Swiss-Protmoderate database homology
Q9SVP7Arabidopsis thalianaPentatricopeptide repeat-containing protein At4g1365034.831%Swiss-Protmoderate database homology
Q9LFL5Arabidopsis thalianaPentatricopeptide repeat-containing protein At5g1686035.034%Swiss-Protmoderate database homology
Q3E6Q1Arabidopsis thalianaPentatricopeptide repeat-containing protein At1g11290, chloroplastic32.036%Swiss-Protmoderate database homology

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