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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattctaatgcaccaaatgaagaaggaagaaattgttgctttagtttttaggctttccctgctttaattctaacatgcactgaaattttacttgattcagTGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTCAATTGAGAGGGAAAGGGACTGATGGCAGACAACACACAGTCTTACTGGG

Basic information

species Glycine max
transcript GLYMA20G02250.2
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|192328251|gb|FK020470.1|FK020470
EST:     CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTTCCACCTCGTACG                         TGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
genomic: CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTTCCACCTCGTACGgtaacacacg ... cttgattcagTGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
EST: gi|151409676|gb|EV279484.1|EV279484
EST:     CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTTCCACCTCGTACG                         TGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
genomic: CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTTCCACCTCGTACGgtaacacacg ... cttgattcagTGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
EST: gi|298199060|gb|HO042423.1|HO042423
EST:     CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTT-CAAC-C-T-C-                         TGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
genomic: CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTTCCACCTCGTACGgtaacacacg ... cttgattcagTGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
EST: gi|18040157|gb|BM308451.1|BM308451
EST:     CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTTCCACCTCGTACG                         TGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
genomic: CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTTCCACCTCGTACGgtaacacacg ... cttgattcagTGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
EST: gi|298177452|gb|HO023585.1|HO023585
EST:     CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTT-CAAC-C-T-C-                         TGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
genomic: CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTTCCACCTCGTACGgtaacacacg ... cttgattcagTGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
EST: gi|151404729|gb|EV274543.1|EV274543
EST:     TTTAATCTTCGTCAACGTTACTTTTCCACCTCGTACG                         TGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
genomic: TTTAATCTTCGTCAACGTTACTTTTCCACCTCGTACGgtaacacacg ... cttgattcagTGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
EST: gi|298168372|gb|HO009302.1|HO009302
EST:     CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTTCAATCTCGTGCG                         TGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
genomic: CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTTCCACCTCGTACGgtaacacacg ... cttgattcagTGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC
EST: gi|151411160|gb|EV280971.1|EV280971
EST:     CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTTCCA-C-C-T-C-                         TGATTAATCTTTGTGGGTGATTGAATTTGGCCGGTTACTGCAGAGGGATTC
genomic: CTTCTAGCCACCCTTTAATCTTCGTCAACGTTACTTTTCCACCTCGTACGgtaacacacg ... cttgattcagTGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttaggctttccctgctttaattctaacatgcactgaaattttacttgattcagTGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTCAATTGAGAGGGAAAGGGACTGATGGCAGACAACACACAGTCTTACTGGG
                                        ttttactt  CT-rich tract
                                     aaattttacttgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattctaatgcaccaaatgaagaaggaagaaattgttgctttagtttttaggctttccctgctttaattctaacatgcactgaaattttacttgattcagTGATTAATCTTTGTGGGTGATTGAATTTGGCTGGTTACTGCAGAGGGATTCAATTGAGAGGGAAAGGGACTGATGGCAGACAACACACAGTCTTACTGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - caccaaa
- - - - - - - - - - - - ggaagaaa
- - - - - - - - - - - - - - - - -tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgcac