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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatgaattctattgttatatttcatttgttgccttaatattgttttgttgaaatttagtctgcattttatcatcattttgttggttttgtagtacagttttatgtgccttgtattcaaaattctatttgtctatttattaaggttttctcctttgtgaaaaatcagACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATGCCCGAGGAGGAATGTGAACTGTCAATGGGCATGTCTGGCGATTTTGAGTTAGCG

Basic information

species Glycine max
transcript GLYMA08G43230.3
intron # 5
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|120530250|gb|EH258384.1|EH258384
EST:     TAATGACAATAGGAATGCCAGACTATACCTCAACTCCACAGAACTTTCAG                         ACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATGCCCGAG
genomic: TAATGACAATAGGAATGCCAGACTATACCTCAACTCCACAGAACTTTCAGgtgatgaatt ... gaaaaatcagACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATGCCCGAG
EST: gi|209728275|gb|BW658487.1|BW658487
EST:     TAATGACAATAGGAATGCCAGACTATACCTCAACTCCACAGAACTTTCAG                         AGCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATGCCCGAG
genomic: TAATGACAATAGGAATGCCAGACTATACCTCAACTCCACAGAACTTTCAGgtgatgaatt ... gaaaaatcagACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATGCCCGAG
EST: gi|21285679|gb|BQ473550.1|BQ473550
EST:     TAATGACAATAGGAATGCCAGACTATACCTCAACTCCACAGAACTTTCAG                         AGCCTATCAAATTGCAGAACTGAAGTATGCAAGGCAC
genomic: TAATGACAATAGGAATGCCAGACTATACCTCAACTCCACAGAACTTTCAGgtgatgaatt ... gaaaaatcagACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCAC
EST: gi|13180762|gb|BG352102.1|BG352102
EST:     TAATGACAATAGGAATGCCAGACTATACCTCAACTCCACAGAACTTTCAG                         ACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATGCCCGAG
genomic: TAATGACAATAGGAATGCCAGACTATACCTCAACTCCACAGAACTTTCAGgtgatgaatt ... gaaaaatcagACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATGCCCGAG
EST: gi|17401932|gb|BM178714.1|BM178714
EST:     TAATGACAATAGGAATGCCAGACTATACCTCAACTCCACAGAACTTTCAG                         ACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATG
genomic: TAATGACAATAGGAATGCCAGACTATACCTCAACTCCACAGAACTTTCAGgtgatgaatt ... gaaaaatcagACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATG
EST: gi|22525413|gb|BU084224.1|BU084224
EST:     TAATGACAATAGGAATGCCAGACTATACCTCAACTCCACAGAACTTTCAG                         ACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATGCCCGAG
genomic: TAATGACAATAGGAATGCCAGACTATACCTCAACTCCACAGAACTTTCAGgtgatgaatt ... gaaaaatcagACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATGCCCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattcaaaattctatttgtctatttattaaggttttctcctttgtgaaaaatcagACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATGCCCGAGGAGGAATGTGAACTGTCAATGGGCATGTCTGGCGATTTTGAGTTAGCG
                                ttttctcctttgtg  CT-rich tract
     aaaattctatttgtct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgatgaattctattgttatatttcatttgttgccttaatattgttttgttgaaatttagtctgcattttatcatcattttgttggttttgtagtacagttttatgtgccttgtattcaaaattctatttgtctatttattaaggttttctcctttgtgaaaaatcagACCCTATCAAATTGCAGAACTGAAGTATGCAAGGCACTTGAAATGCCCGAGGAGGAATGTGAACTGTCAATGGGCATGTCTGGCGATTTTGAGTTAGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA