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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTTCTCTTAGCCCGGATCTCTACAAGCCAACTTTTGCCGGGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtacacacatatactacgagcttaattaaccacgttttttattagtgcctctcgtatataacttaccaatgctttattgactgtgaccatgattagtcttatatatgcatcattgtttgtgacttcgtttcag

Basic information

species Oryza sativa
transcript LOC_Os02g33110.1
intron # 6
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|86600201|gb|CI355958.1|CI355958
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCGTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|58587777|gb|CF986085.1|CF986085
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTTGAGAGCTTCGGCGCCGGGGGCA
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTT-GAGAGCTTCGGCGCCGGGGGCA
EST: gi|88252292|gb|CI350720.1|CI350720
EST:     GTTCGGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GTTC-GTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|87027005|gb|CI259658.1|CI259658
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|29660430|gb|CB656705.1|CB656705
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|4714303|gb|AU058270.1|AU058270
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|29660456|gb|CB656731.1|CB656731
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|29660422|gb|CB656697.1|CB656697
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGATTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|29642632|gb|CB647639.1|CB647639
EST:     GGTTTGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|88996390|gb|CI259894.1|CI259894
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|29660484|gb|CB656759.1|CB656759
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|58590379|gb|CF988687.1|CF988687
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|29660424|gb|CB656699.1|CB656699
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|38476190|gb|CF960323.1|CF960323
EST:     GTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|29674131|gb|CB670406.1|CB670406
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|38477539|gb|CF961672.1|CF961672
EST:     GTTCGTCGACGACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGAGCTGCATC
genomic: GTTCGTCGAC-ACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|117234559|gb|CT842376.1|CT842376
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|87039999|gb|CI194621.1|CI194621
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|88247319|gb|CI247168.1|CI247168
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|88243204|gb|CI244326.1|CI244326
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|89161862|gb|CI102210.1|CI102210
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|29660482|gb|CB656757.1|CB656757
EST:     GGTTAGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|86485209|gb|CI127842.1|CI127842
EST:     CACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: CACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
EST: gi|86500033|gb|CI142666.1|CI142666
EST:     GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTG                         ATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC
genomic: GGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtaca ... ttcgtttcagATTGACCGTTCGGTGGTTGAGAGCTTCGGCGCCGGGGGCAAGACCTGCATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCTTCTCTTAGCCCGGATCTCTACAAGCCAACTTTTGCCGGGTTCGTCGACACCGACATCTCGTCCGGGAAGATCTCCTTGAGAAGCTTGgtatagtacacacatatactacgagcttaattaaccacgttttttattagtgcctctcgtatataacttaccaatgctttattgactgtgaccatgattagtcttatatatgcatcattgtttgtgacttcgtttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC