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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgcttttatgcatcttcttccttgattttgtttcttgttaatacttggttgctctgatgcatgcttttgttgctgatgtgtgatgtggcatgctg...

Basic information

species Oryza sativa
transcript LOC_Os11g10480.2
intron # 2
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|86900174|gb|CI300199.1|CI300199
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|58602749|gb|CK013277.1|CK013277
EST:     GGGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|5455516|gb|AU075682.1|AU075682
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|58661298|gb|CK049978.1|CK049978
EST:     GTGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: G-GACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|58654478|gb|CK043158.1|CK043158
EST:     AGGGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAGGGTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: AGGGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|218495107|gb|FG966746.1|FG966746
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|3760061|gb|C97319.1|C97319
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|7168816|gb|AU062485.2|AU062485
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|33796288|gb|CF324011.1|CF324011
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|3759113|gb|C96812.1|C96812
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|58688411|gb|CK077098.1|CK077098
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|29677130|gb|CB673405.1|CB673405
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|58679631|gb|CK068318.1|CK068318
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|88316018|gb|CI618894.1|CI618894
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|27554089|gb|CA997989.1|CA997989
EST:     ACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: ACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|218491438|gb|FG947037.1|FG947037
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
EST: gi|33794475|gb|CF323125.1|CF323125
EST:     GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGG                         TATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA
genomic: GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgctt ... atttctgcagTATTGTGGAGAGTGTTGGAGAGGGTGTGACTGATCTTGCCCCTGGTGACCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGACAGACTCCCGTGTTCCCTCGGATCTTCGGCCATGAAGCTGGAGGgtatgtgcttttatgcatcttcttccttgattttgtttcttgttaatacttggttgctctgatgcatgcttttgttgctgatgtgtgatgtggcatgctg

- - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - -  TGGAGG