Sequence
atgc intronic sequence ATGC exonic sequenceGTAGACTTGGTCACCATGCTAGAAAAGGCGATCAACTACGTCAAATTCCTCCAGCTGCAAGTGAAGgtatattgcaatactatgcatggatagagaccatccatagaatatatagtagtagctctttcagttcagttcaccgtaattgatagttcttcacttcagctcttatgtttcacgcaagtttagtgtctatgattaattagctgaccataatgatctgattctgatgatgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g02110.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g02110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G066057_T01 (Zea mays), 5'ss of exon 3
GTAGACTTGGTCACCATGCTAGAAAAGGCGATCAACTACGTCAAATTCCTCCAGCTGCAAGTGAAGgtatattgcaatactatgcatggatagagaccatccatagaatatatagtagtagctctttcagttcagttcaccgtaat-tgatagt-tcttcacttcagctcttatgtttcacgcaagtttagtgtctatgattaattagctgaccataatgatctgattctgatgatgcag------------------------
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GTGGACTTGGTCACCATGCTTGAGAAGGCGATCACCTATGTCAAGTTTCTCCAGCTGCAAGTGAAGgtacgtggcgaaggc-tgtctgatcatatat-atctgt----catttagttttggctacctta-tgcatgggatggtaacatggtactatctccatctccgttgttatcgtccgctaaacgtgacagataaaaaagaacggaggaagtatattatcccagcttcatctaattaatggattcatgctgcatgcatgcag
upper sequence: LOC_Os01g02110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: EFJ25918 (Selaginella moellendorffii), 5'ss of exon 3
GTAGACTTGGTCACCATGCTAGAAAAGGCGATCAACTACGTCAAATTCCTCCAGCTGCAAGTGAAGgtatattgcaatactatgcatggatagagaccatccatagaatata-tagtagtagctctttcagttcagttcaccgtaattgatagttcttcacttcagctcttatgtttcacgcaagtttagtgtctatgattaattagctgaccataatgatctgattctgatgatgcag
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GTTGATCTAGTGACGATGCTGGAGAAGGCCATCAATTACGTCAAGTTCCTCCAGCTGCAAGTTAAGgt------cggtgctagtt---------gactttttctggtctacaatgcttgactcttttccag------------------------------------------------------------------------------------------------------------Mapped 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|86500245|gb|CI142878.1|CI142878EST: TGCTAGAAAAGGCGATCAACTACGTCAAATTCCTCCAGCTGCAAGTGAAG GTTTTGGCTACGGATGAGTTCTGGCCGGCACCAAGGAGGGAAAGCACCAGA
genomic: TGCTAGAAAAGGCGATCAACTACGTCAAATTCCTCCAGCTGCAAGTGAAGgtatattgca ... gatgatgcagGTTTTGGCTACTGATGAGTTCTGGCCGGCA-CAAGGAGGGAAAGCACCAGA
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTAGACTTGGTCACCATGCTAGAAAAGGCGATCAACTACGTCAAATTCCTCCAGCTGCAAGTGAAGgtatattgcaatactatgcatggatagagaccatccatagaatatatagtagtagctctttcagttcagttcaccgtaattgatagttcttcacttcagctcttatgtttcacgcaagtttagtgtctatgattaattagctgaccataatgatctgattctgatgatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC