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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatgtgcttcaattctctcatgtttctaccatattctgttctttctgaactacagtaattagtctgtaatatttgattaattgtggatattatttacagCTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTATCCTGCTGCACAGCAAATGCTTATTCATCAAGGAAAAGTTCTAAAGGATG

Basic information

species Glycine max
transcript GLYMA01G20670.1
intron # 1
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|213598569|gb|DB958153.1|DB958153
EST:     AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACG                         CTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
genomic: AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACGgtttgcccct ... ttatttacagCTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
EST: gi|20448498|gb|BQ252622.1|BQ252622
EST:     AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACG                         CTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
genomic: AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACGgtttgcccct ... ttatttacagCTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
EST: gi|213598669|gb|DB964263.1|DB964263
EST:     AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACG                         CTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
genomic: AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACGgtttgcccct ... ttatttacagCTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
EST: gi|298187219|gb|HO034368.1|HO034368
EST:     AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACG                         CTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
genomic: AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACGgtttgcccct ... ttatttacagCTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
EST: gi|192323620|gb|FK017486.1|FK017486
EST:     AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACG                         CTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
genomic: AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACGgtttgcccct ... ttatttacagCTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
EST: gi|18040534|gb|BM308828.1|BM308828
EST:     AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACG                         CTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
genomic: AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACGgtttgcccct ... ttatttacagCTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
EST: gi|9986013|gb|BE660019.1|BE660019
EST:     AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACG                         CTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
genomic: AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACGgtttgcccct ... ttatttacagCTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
EST: gi|298169814|gb|HO018438.1|HO018438
EST:     AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACG                         CTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
genomic: AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACGgtttgcccct ... ttatttacagCTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
EST: gi|9986012|gb|BE660018.1|BE660018
EST:     AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACG                         CTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
genomic: AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACGgtttgcccct ... ttatttacagCTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTAT
EST: gi|193343377|gb|FK308183.1|FK308183
EST:     AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACG                         CTTTCTGAAGTGAAGTAAAAATTATAGAAACTGTTCAGGGTGCAGATGTCT
genomic: AGACTCTCAAGGGCACGCACTTCGAAATTGAAGTGAACCCTTCGGACACGgtttgcccct ... ttatttacagCTTTCTGAAGTGAAG-AAAAAT-ATAGAAACTGTTCAGGGTGCAGATGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgaactacagtaattagtctgtaatatttgattaattgtggatattatttacagCTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTATCCTGCTGCACAGCAAATGCTTATTCATCAAGGAAAAGTTCTAAAGGATG
                              gattaat  putative branch site (score: 3)
                      taatatttgattaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttatgtgcttcaattctctcatgtttctaccatattctgttctttctgaactacagtaattagtctgtaatatttgattaattgtggatattatttacagCTTTCTGAAGTGAAGAAAAATATAGAAACTGTTCAGGGTGCAGATGTCTATCCTGCTGCACAGCAAATGCTTATTCATCAAGGAAAAGTTCTAAAGGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - -tgcttca
- - - - - - - - - tcatgtt
- - - - - - - - - - - - -tctacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtctgta