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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTACCTTTGTGGTGGTCCAGAAGCGTCATCACACAAGGCTGTTTGCTAATAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtcgccttcctgtaattttagttattttgtatatcttgttaaccctatgattgacacctcatttctttacctgaatttaatttctttatgttcatctgatttcag

Basic information

species Oryza sativa
transcript LOC_Os02g45070.1
intron # 19
splice site 5'
intron type U2

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|218479705|gb|FG950878.1|FG950878
EST:     TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAG                         GCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
genomic: TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
EST: gi|88960427|gb|CI006388.1|CI006388
EST:     ACAGAAGTGGAAATATACTACCAG                         GCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
genomic: ACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
EST: gi|58673688|gb|CK062374.1|CK062374
EST:     TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAG                         GCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
genomic: TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
EST: gi|14571449|gb|BI118817.1|BI118817
EST:     TAACCACAGGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAG                         GCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
genomic: TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
EST: gi|38469760|gb|CF953891.1|CF953891
EST:     TAACCACAAGGACCAGCGCACTGTTNACAGAAGTGGAAATATACTACCAG                         GCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
genomic: TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
EST: gi|58681274|gb|CK069961.1|CK069961
EST:     TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAG                         GCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
genomic: TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
EST: gi|218488951|gb|FG960688.1|FG960688
EST:     TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAG                         GCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
genomic: TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
EST: gi|14571456|gb|BI118824.1|BI118824
EST:     TAACCACAAGGACCAGCGCACCGTTGACAGAAGTGGAAATATACTACCAG                         GCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
genomic: TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
EST: gi|29669480|gb|CB665755.1|CB665755
EST:     TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAG                         GCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
genomic: TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
EST: gi|58599567|gb|CK010095.1|CK010095
EST:     TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAG                         GCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
genomic: TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
EST: gi|29657069|gb|CB653344.1|CB653344
EST:     TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAG                         GCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
genomic: TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
EST: gi|86521035|gb|CI161241.1|CI161241
EST:     GCACTGTTGACAGAAGTGGAAATATACTACCAG                         CCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTGTGATTTCTACC
genomic: GCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
EST: gi|29626579|gb|CB631590.1|CB631590
EST:     TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAG                         GCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC
genomic: TAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtc ... ctgatttcagGCACCGTGGTTGATTCAAAGATATGCCATCCTACTGAGTTTGATTTCTACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTACCTTTGTGGTGGTCCAGAAGCGTCATCACACAAGGCTGTTTGCTAATAACCACAAGGACCAGCGCACTGTTGACAGAAGTGGAAATATACTACCAGgtaatttgtcgccttcctgtaattttagttattttgtatatcttgttaaccctatgattgacacctcatttctttacctgaatttaatttctttatgttcatctgatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA