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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagggacgtagggccttttgacgttgcttaatggatacttttttctgcatattagcactatcatgcttgacatttccatctgtacacctcttgtttttgtgtttcaccattactctcattgtctttttcacagaagTGACGAGAGCAACGAGACCAAGTCAAAAGTAAATATTAGGACGTGCATAGTGTACCGCAGAGGCCAAAAGCAGCTGACAAAGTTGTTCTTGAGGGAGGCA

Basic information

species Oryza sativa
transcript LOC_Os06g03676.1
intron # 15
splice site 3'
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|86524540|gb|CI164746.1|CI164746
EST:     AGCCAACTACTTGAGAAATTCGATCTCAGTGATTCAGAAGACGCAACGAGAAG                       
genomic: AGCCAACTACTTGAGAAATTCGATCTCAGTGATTCAGAAGACGCAAC--G-AGgtagggacgt ... ttcacaga
EST: gi|89176289|gb|CI043310.1|CI043310
EST:     GAGAAATTCGATCTCAGTGATTCAGAAGACGCAACGAG                         TGACGAGAGCAACGAGACCAAGTCAAAAGTAAATATTAGGACGTGCATAGT
genomic: GAGAAATTCGATCTCAGTGATTCAGAAGACGCAACGAGgtagggacgt ... ttcacagaagTGACGAGAGCAACGAGACCAAGTCAAAAGTAAATATTAGGACGTGCATAGT
EST: gi|27548210|gb|CA766314.2|CA766314
EST:     AGCCAACTACTTGAGAAATTCGATCTCAGTGATTCAGAAGACGCAACGAGAAG                       
genomic: AGCCAACTACTTGAGAAATTCGATCTCAGTGATTCAGAAGACGCAAC--G-AGgtagggacgt ... ttcacaga
EST: gi|89164839|gb|CI101927.1|CI101927
EST:     AGCCAACTACTTGAGAAATTCGATCTCAGTGATTCAGAAGACGCAACGAGAAG                       
genomic: AGCCAACTACTTGAGAAATTCGATCTCAGTGATTCAGAAGACGCAAC--G-AGgtagggacgt ... ttcacaga
EST: gi|89174651|gb|CI110849.1|CI110849
EST:     AAGACGCAACGAGAAG                       
genomic: AAGACGCAAC--G-AGgtagggacgt ... ttcacaga
EST: gi|89166086|gb|CI103176.1|CI103176
EST:     AGCCAACTACTTGAGAAATTCGATCTCAGTGATTCAGAAGACGCAACGAGAAG                       
genomic: AGCCAACTACTTGAGAAATTCGATCTCAGTGATTCAGAAGACGCAAC--G-AGgtagggacgt ... ttcacaga
EST: gi|86526395|gb|CI166601.1|CI166601
EST:     AGCCAACTACTTGAGAAATTCGATCTCAGTGATTCAGAAGACGCAACGAGAAG                       
genomic: AGCCAACTACTTGAGAAATTCGATCTCAGTGATTCAGAAGACGCAAC--G-AGgtagggacgt ... ttcacaga


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacacctcttgtttttgtgtttcaccattactctcattgtctttttcacagaagTGACGAGAGCAACGAGACCAAGTCAAAAGTAAATATTAGGACGTGCATAGTGTACCGCAGAGGCCAAAAGCAGCTGACAAAGTTGTTCTTGAGGGAGGCA
                               ctctcattgtcttttt  CT-rich tract
         ttgttttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagggacgtagggccttttgacgttgcttaatggatacttttttctgcatattagcactatcatgcttgacatttccatctgtacacctcttgtttttgtgtttcaccattactctcattgtctttttcacagaagTGACGAGAGCAACGAGACCAAGTCAAAAGTAAATATTAGGACGTGCATAGTGTACCGCAGAGGCCAAAAGCAGCTGACAAAGTTGTTCTTGAGGGAGGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA