Gene Card
Gene overview
cDNA / CDS / Protein Sequences
726 bp · LXL04_009551|LXL04_009551|OH1004|cDNA
ATGGAAACGAAGCCCTCGTCTACTTTTCCCTCAACATTTGTTGATCAATTAGTCGTTCCAGGAGATGTGATACTGGACCTCTCAAGTATGGCCAATCAAACGCTCAAGCTCGGAGGTGGCCTTCGTCAGGACGGCGATTCCATTTCTGTAATGAAGTCTGGGACGCTGAGATTTACGAAGCCGAACAAATATTGGGTTGAGAGCTCCCACAAGAGGTATGTACCAAGTGTTGGGGATAATGTTCTTGGAGTGGTGGTGGA...
726 bp · LXL04_009551|LXL04_009551|OH1004|CDS
ATGGAAACGAAGCCCTCGTCTACTTTTCCCTCAACATTTGTTGATCAATTAGTCGTTCCAGGAGATGTGATACTGGACCTCTCAAGTATGGCCAATCAAACGCTCAAGCTCGGAGGTGGCCTTCGTCAGGACGGCGATTCCATTTCTGTAATGAAGTCTGGGACGCTGAGATTTACGAAGCCGAACAAATATTGGGTTGAGAGCTCCCACAAGAGGTATGTACCAAGTGTTGGGGATAATGTTCTTGGAGTGGTGGTGGA...
Protein
Download Protein FASTA241 aa · LXL04_009551|LXL04_009551|OH1004|PROTEIN
METKPSSTFPSTFVDQLVVPGDVILDLSSMANQTLKLGGGLRQDGDSISVMKSGTLRFTKPNKYWVESSHKRYVPSVGDNVLGVVVDTKPDNFLVDIKGPALAFLPVLAFEGGTRRNIPKFEVGTLLYVRVVNANTGMNPELSCMDANGKAGEYGVLKEGYMFESSTGLSRTLLSSPPYPTLEALGKKLSFEIAVGINGRFWVNASQSSTVILVGNAILKSESLSVVQQKIYLEKLLKSIQ
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_009551 |
|---|---|
| TK1151 ID | TkA03G447300 |
| OH-1004 ID | LXL04_009551 |
| Relationship / confidence | Rbh High Identity Coverage Synteny / Strict |
| Protein identity (%) | 100.000 |
| 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_009551 |
|---|---|
| Location | Chr02:128787939-128790564 (-) |
| Description | Similar to exosc3: Putative exosome complex component rrp40 |
| Arabidopsis / Rice Reference Genes and Papers |
Download references for this gene ArabidopsisNo hit for this species in the current source table. RiceNo hit for this species in the current source table. |
| Functional annotation source | View annotation sourcesFunctional annotation source: OH1004 · |
| GO annotations (OH1004 source) | GO:0000467 exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Biological Process GO:0000956 nuclear-transcribed mRNA catabolic process Biological Process GO:0006364 rRNA processing Biological Process GO:0006396 RNA processing Biological Process GO:0006401 RNA catabolic process Biological Process GO:0006402 mRNA catabolic process Biological Process GO:0010468 regulation of gene expression Biological Process GO:0034475 U4 snRNA 3'-end processing Biological Process GO:0045006 DNA deamination Biological Process GO:0045995 regulation of embryonic development Biological Process GO:0071034 CUT catabolic process Biological Process GO:0071035 nuclear polyadenylation-dependent rRNA catabolic process Biological Process |
| KEGG gene cross-reference | bta:533245 ddi:DDB_G0276783 dme:Dmel_CG31938 hsa:51010 mmu:66362 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.
PF21261.4RRP40_N_mamm18-68 aaPF18311.8Rrp40_N35-72 aaPF21262.4RRP40_S173-155 aaPF15985.12KH_6160-207 aa| Gene ID | Domain ID | Domain Name | Start aa | End aa | E-value | Score |
|---|---|---|---|---|---|---|
| LXL04_009551 | PF21261.4 | RRP40_N_mamm | 18 | 68 | 2e-09 | 37.8 |
| LXL04_009551 | PF18311.8 | Rrp40_N | 35 | 72 | 8.9e-08 | 32.5 |
| LXL04_009551 | PF21262.4 | RRP40_S1 | 73 | 155 | 9.8e-28 | 96.6 |
| LXL04_009551 | PF15985.12 | KH_6 | 160 | 207 | 4.6e-12 | 46.8 |
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.
No result was found for this query.