Sequence
atgc intronic sequence ATGC exonic sequenceTGAACGGGCAGCTGCCGGGGCCGACGCTGGAGGTCCGGGAGGGCGACACCGTGGTGATCAACGTCGTCAACCACGCGCAGTACAACGTCACCATCCATTGgtacgtgtcgtcgacccaactacgtacaccaatcaaacagctaacgacttccgctcctggtcgtcaacggcgacgattgttgttttctgcgccgccggtcgagatctagctagctaacacatggtgatcaacgcgcgcgtgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g61160.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g61160.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G336337_T01 (Zea mays), 5'ss of exon 2
TGAACGGGCAGCTGCCGGGGCCGACGCTGGAGGTCCGGGAGGGCGACACCGTGGTGATCAACGTCGTCAACCACGCGCAGTACAACGTCACCATCCATTGgtacgtgtcgtcgacccaactacgtacaccaatcaaacagctaacgacttccgctcctggtcgtcaacggcgacgattgttgttttctgcgccgccggtcgagatctagctagctaacacatggtgatcaacgcgcgcgtgcag
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TGAACGGGCAGTACCCGGGGCCGACGCTGGAGGTCAGAGAGGGCGACACGCTGGTGATCAACGTCGTCAACCGGGCGCAGTACAACGTCACCATCCACTGgtacg----gtacaccc--ttccttgttccatctagttttctca-----tccg--tcgtgtactctactccctctttcgtggctgtctcgactctcgatcaatgcgtgcttctgttcttcataatg--catggcgcggctgcag
upper sequence: LOC_Os01g61160.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G132169_T01 (Zea mays), 5'ss of exon 2
TGAACGGGCAGCTGCCGGGGCCGACGCTGGAGGTCCGGGAGGGCGACACCGTGGTGATCAACGTCGTCAACCACGCGCAGTACAACGTCACCATCCATTGgtacgtgtcgtcgacccaactacgtacaccaatcaaacagctaacgacttc-cgctcctggtcgtcaacggcgacgattgt-tgttttctgcgccgccggtcgagatctagctagct-aacacatggtgatcaacgcgcgcgtgcag
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TGAACGGGCAGTACCCGGGGCCGACGCTGGAGGTCAGGGAGGGTGACACGCTCGTCATCAACGTCGTCAACCGGGCGCAGTACAACGCCACCATCCACTGgtacgta-cgtcgttgaagct-cgtttttc---tcaaccgtgagtgacatgacatgacatgacatcgatcgtctggtctgtctatactctctcccgttcatggccggctgtctcgatcaatgcgcgctgcatgcatggcgtgtgcagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|88288514|gb|CI661719.1|CI661719EST: GTGGTGATCAACGTCGTCAACCACGCGCAGTACAACGTCACCATCCATTG GCACGGCATCCGGCAGTTCAGGACGGGGTGGGCGGACGGGCCGGAGTTC
genomic: GTGGTGATCAACGTCGTCAACCACGCGCAGTACAACGTCACCATCCATTGgtacgtgtcg ... gcgcgtgcagGCACGGCATCCGGCAGTTCAGGACGGGGTGGGCGGACGGGCCGGAGTTC
EST:
gi|88411790|gb|CI571282.1|CI571282EST: GTGGTGATCAACGTCGTCAACCACGCGCAGTACAACGTCACCATCCATTG GCACGGCATCCGGCAGTTCAGGACGGGGTGGGCGGACGGGCCGGAGTTCGT
genomic: GTGGTGATCAACGTCGTCAACCACGCGCAGTACAACGTCACCATCCATTGgtacgtgtcg ... gcgcgtgcagGCACGGCATCCGGCAGTTCAGGACGGGGTGGGCGGACGGGCCGGAGTTCGT
EST:
gi|88308196|gb|CI648023.1|CI648023EST: GTGGTGATCAACGTCGTCAACCACGCGCAGTACAACGTCACCATCCATTG GCACGGCATCCGGCAGTTCAGGACG
genomic: GTGGTGATCAACGTCGTCAACCACGCGCAGTACAACGTCACCATCCATTGgtacgtgtcg ... gcgcgtgcagGCACGGCATCCGGCAGTTCAGGACG
RNA-Seq data
ATGC Supported by RNA-Seq exonic block that spans over the splice site
atgs Truncated intron sequence
Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.
Found data for 1 RNA-Seqlibrary.
Block sizes:
57 (upstream exon),
37 (downstream exon)
Score:
2TGAACGGGCAGCTGCCGGGGCCGACGCTGGAGGTCCGGGAGGGCGACACCGTGGTGATCAACGTCGTCAACCACGCGCAGTACAACGTCACCATCCATTGgtacgtgtcg ... gcgcgtgcagGCACGGCATCCGGCAGTTCAGGACGGGGTGGGCGGACGGGCCGGAGTTCGTGACACAGTGCCCGATCAAGCCGGGCGGCAGCTACAAGTACCGGTTCACC
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