Gene Card
Gene overview
cDNA / CDS / Protein Sequences
903 bp · LXL04_039029|LXL04_039029|OH1004|cDNA
ATGGCGAAAATCACTTCCATCCTCTTCTTCAATCTTAAACCTCACTATCTCTTATCATCCACCTCCTTATTCCGCCACCACCTCCCACCGTTAATCGTCCCCATTCCACCCACAGCCCAAAATGAATCACTATTTTCCCGACATTTCAGCAGCAGGACCACTTCTTCTCAGCCAACAATCACCTCAAAGCGCGACACCATGGTTAACTTCTCACTCTCCGACTCCGAATCCGACGATGACTCCCAATCTCCACCACCCCC...
903 bp · LXL04_039029|LXL04_039029|OH1004|CDS
ATGGCGAAAATCACTTCCATCCTCTTCTTCAATCTTAAACCTCACTATCTCTTATCATCCACCTCCTTATTCCGCCACCACCTCCCACCGTTAATCGTCCCCATTCCACCCACAGCCCAAAATGAATCACTATTTTCCCGACATTTCAGCAGCAGGACCACTTCTTCTCAGCCAACAATCACCTCAAAGCGCGACACCATGGTTAACTTCTCACTCTCCGACTCCGAATCCGACGATGACTCCCAATCTCCACCACCCCC...
Protein
Download Protein FASTA300 aa · LXL04_039029|LXL04_039029|OH1004|PROTEIN
MAKITSILFFNLKPHYLLSSTSLFRHHLPPLIVPIPPTAQNESLFSRHFSSRTTSSQPTITSKRDTMVNFSLSDSESDDDSQSPPPPAAKEIDKSKLPPPYDPFKKTPVIQEPDDPTNLQEVFHKIRIDGLTDSAVKMFDGLSKDGLTHEALELFSQIKDKGQMPDVVAHTAVIEAYAAADKAKEALKVYMRMLASGVLPNAYTYTVLIKSLAGSGDEKLVGEAKKYIVEMMGKGIRPNPATCVAVMEGFVKGGKEEEGR...
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.
ID Mapping
| Input ID | LXL04_039029 |
|---|---|
| TK1151 ID | TkA04G496770 |
| OH-1004 ID | LXL04_039029 |
| Relationship / confidence | Rbh Below Probable Coverage Or Synteny Threshold / Review |
| Protein identity (%) | 88.700 |
| Protein coverage (%) | TK1151 100.000 / OH-1004 100.000Coverage and evidenceCoverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation. |
| Source version | OH-1004 / GCA_047496595.1_OSU_TarKok_2.0 |
SNP / Indel variants and carrier samplesCRA009020 · OH-1004
Expand to load variant records for this gene.
Basic Information and Functional Annotation
| Gene ID | LXL04_039029 | ||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Location | Chr09:57088833-57089735 (-) | ||||||||||||||||||
| Description | Similar to At4g38150: Pentatricopeptide repeat-containing protein At4g38150 | ||||||||||||||||||
| Arabidopsis / Rice Reference Genes and Papers |
Download references for this gene Arabidopsis
RiceNo hit for this species in the current source table. | ||||||||||||||||||
| Functional annotation source | View annotation sourcesFunctional annotation source: OH1004 · | ||||||||||||||||||
| GO annotations (OH1004 source) | GO:0009793 embryo development ending in seed dormancy Biological Process GO:0005739 mitochondrion Cellular Component GO:0009507 chloroplast Cellular Component GO:0003723 RNA binding Molecular Function | ||||||||||||||||||
| KEGG gene cross-reference | ath:AT4G20090 ath:AT4G38150 These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene. |
Gene expression
View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.
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.
LocPro · Direct prediction · Computational prediction, not experimental localization
Predicted Functional Domains
Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.
PF29070.1MSC6_N136-221 aaPF13041.13PPR_2138-178 aaPF23276.3TPR_24146-248 aaPF17177.11PPR_long149-283 aaPF13812.13PPR_3154-211 aaPF13041.13PPR_2165-213 aaPF13812.13PPR_3230-273 aa| Gene ID | Domain ID | Domain Name | Start aa | End aa | E-value | Score |
|---|---|---|---|---|---|---|
| LXL04_039029 | PF29070.1 | MSC6_N | 136 | 221 | 1.8e-06 | 28.1 |
| LXL04_039029 | PF13041.13 | PPR_2 | 138 | 178 | 1.7e-24 | 86.4 |
| LXL04_039029 | PF23276.3 | TPR_24 | 146 | 248 | 8.6e-08 | 32.9 |
| LXL04_039029 | PF17177.11 | PPR_long | 149 | 283 | 2.6e-10 | 40.8 |
| LXL04_039029 | PF13812.13 | PPR_3 | 154 | 211 | 1e-15 | 58.3 |
| LXL04_039029 | PF13041.13 | PPR_2 | 165 | 213 | 1.7e-24 | 86.4 |
| LXL04_039029 | PF13812.13 | PPR_3 | 230 | 273 | 1e-15 | 58.3 |
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.
| Protein | Organism | Description | Identity | Database | Confidence |
|---|---|---|---|---|---|
Q9SZL5 | Arabidopsis thaliana | Pentatricopeptide repeat-containing protein At4g38150 | 33.529% | Swiss-Prot | moderate database homology |
O49436 | Arabidopsis thaliana | Pentatricopeptide repeat-containing protein At4g20090 | 32.000% | Swiss-Prot | moderate database homology |
Q9LSL9 | Arabidopsis thaliana | Pentatricopeptide repeat-containing protein At5g65560 | 29.255% | Swiss-Prot | weak database homology |
Q9LN22 | Arabidopsis thaliana | Pentatricopeptide repeat-containing protein At1g20300, mitochondrial | 32.117% | Swiss-Prot | weak database homology |
Q8LDU5 | Arabidopsis thaliana | Pentatricopeptide repeat-containing protein At4g01400, mitochondrial | 34.559% | Swiss-Prot | weak database homology |