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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcttaatatcttatctataatgttaattgctttatgtttgcaatccactttgtgaaagggtcaaacaaattaataatttaaattgatttcctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTAGAAAACCGAG

Basic information

species Glycine max
transcript GLYMA16G33160.2
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|12774717|gb|BG239644.1|BG239644
EST:     TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACG                         TTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATAC-AGCTA
genomic: TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACGgtaagcccca ... cctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
EST: gi|16105719|gb|BI893459.1|BI893459
EST:     TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACG                         TTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
genomic: TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACGgtaagcccca ... cctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
EST: gi|209697598|gb|BW663851.1|BW663851
EST:     TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACG                         TTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
genomic: TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACGgtaagcccca ... cctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
EST: gi|209704046|gb|BW673646.1|BW673646
EST:     TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACG                         TTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
genomic: TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACGgtaagcccca ... cctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
EST: gi|213615364|gb|DB965478.1|DB965478
EST:     TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACG                         TTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
genomic: TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACGgtaagcccca ... cctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
EST: gi|19347239|gb|BM892119.1|BM892119
EST:     TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACG                         TTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
genomic: TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACGgtaagcccca ... cctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
EST: gi|151410328|gb|EV280143.1|EV280143
EST:     TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACG                         TTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
genomic: TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACGgtaagcccca ... cctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
EST: gi|298187824|gb|HO031781.1|HO031781
EST:     TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACG                         TTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
genomic: TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACGgtaagcccca ... cctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
EST: gi|151412485|gb|EV282297.1|EV282297
EST:     TCTTCACCCTNNNNNNNTTTTCGCAGACGAAGGCGCATTCTATTCTAACG                         TTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
genomic: TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACGgtaagcccca ... cctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
EST: gi|192323171|gb|FK018942.1|FK018942
EST:     TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACG                         TTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
genomic: TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACGgtaagcccca ... cctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
EST: gi|18710356|gb|BM522494.1|BM522494
EST:     TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACG                         TTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA
genomic: TCTTCACCCTCCCCTCCTTTTCGCAGACGAAGGCGCATTCTATTCTAACGgtaagcccca ... cctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccactttgtgaaagggtcaaacaaattaataatttaaattgatttcctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTAGAAAACCGAG
                                          tttcctttgtt  CT-rich tract
                  aaacaaattaataatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atcttaatatcttatctataatgttaattgctttatgtttgcaatccactttgtgaaagggtcaaacaaattaataatttaaattgatttcctttgttagTTCACAAGATAGGAAGGCAAGACTAAAGATTCCACCACCTGATACAAGCTAGAAAACCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - tgcttta
- - - - - - - - - - - - - - - - - -tgtttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacaaa