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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctcttttccttcttctttacccaaatgcctataatttcaacagtggcatttttatgtatattaaaatgttttgctgaattactgtttttgttttgttagTGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTCTTCATCAAACAGGAGGGATTATGATGATGGTGGGTCACCAAAGAGGAAC

Basic information

species Glycine max
transcript GLYMA08G20670.1
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|4288854|gb|AI441392.1|AI441392
EST:     CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAG                         TGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
genomic: CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAGgtaatcgccg ... gttttgttagTGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
EST: gi|7925520|gb|AW831546.1|AW831546
EST:     CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAG                         TGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
genomic: CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAGgtaatcgccg ... gttttgttagTGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
EST: gi|193361374|gb|FK327320.1|FK327320
EST:     CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAG                         TGATTCTGGGCTAGGTGCACCTACAAGGGTTTGGTGGTTCTGTACAACACT
genomic: CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAGgtaatcgccg ... gttttgttagTGATTCTGGGCTAGGTGCACCTACA-GGGTTTGGTGGTTCTGTACAACACT
EST: gi|209700616|gb|BW670334.1|BW670334
EST:     CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAG                         TGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
genomic: CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAGgtaatcgccg ... gttttgttagTGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
EST: gi|213595546|gb|DB968510.1|DB968510
EST:     CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAG                         TGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
genomic: CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAGgtaatcgccg ... gttttgttagTGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
EST: gi|151397571|gb|EV267444.1|EV267444
EST:     CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAG                         TGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
genomic: CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAGgtaatcgccg ... gttttgttagTGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
EST: gi|9986238|gb|BE660346.1|BE660346
EST:     CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAG                         TGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
genomic: CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAGgtaatcgccg ... gttttgttagTGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
EST: gi|207808539|gb|GD777670.1|GD777670
EST:     CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAG                         TGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
genomic: CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAGgtaatcgccg ... gttttgttagTGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
EST: gi|298192717|gb|HO033151.1|HO033151
EST:     CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAG                         TGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
genomic: CGCTACGACAGCCGCTCCGGCGACCCAGCTTCCTATCGTGATCGGAGGAGgtaatcgccg ... gttttgttagTGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcatttttatgtatattaaaatgttttgctgaattactgtttttgttttgttagTGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTCTTCATCAAACAGGAGGGATTATGATGATGGTGGGTCACCAAAGAGGAAC
                                        tttttgtttt  CT-rich tract
     ttttatgtatattaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctcttttccttcttctttacccaaatgcctataatttcaacagtggcatttttatgtatattaaaatgttttgctgaattactgtttttgttttgttagTGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTCTTCATCAAACAGGAGGGATTATGATGATGGTGGGTCACCAAAGAGGAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - ccttctt
- - - - - - - - - -acccaaa
- - - - - - - - - - - - - - - - - - - - - - -ggcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgaa