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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgctgtaagccatgtttttggaggtttttaaacaccgaactgttgcatttcatatttctgtgcacattaactgaattgtgattcttttagctgggtcagCTGATTCTGAAAATGAGACTGCATTGTTGGAATCAAAGACTGCTAAGGAGACAATTGACATAAAGGAAGTTAAGCGAGTTGATCATATTCTTGCATCCTT

Basic information

species Glycine max
transcript GLYMA08G21290.2
intron # 3
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|7042352|gb|AW472246.1|AW472246
EST:     ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATG                         CTGGGTCAGCTGATTCTGANAATGAGACTGCATTGTTGGAATCAAAGACTG
genomic: ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATGgtaagtggag ... gctgggtcagCTG----A--T--T-CTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG
EST: gi|19346603|gb|BM891483.1|BM891483
EST:     ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATGCTGGGTCAG                 
genomic: ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATA-------T--Ggtaagtggag ... gc
EST: gi|192307837|gb|FG999316.1|FG999316
EST:     GGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATGCTGGGTCAG                 
genomic: GGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATA-------T--Ggtaagtggag ... gc
EST: gi|192307836|gb|FG999315.1|FG999315
EST:     ACAAAAGGCTTTTACTACAGCTGCCTCAA-GTTGGAGAAGATTGGATATG                         CTGGGTCAGCTGATTCTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG
genomic: ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATGgtaagtggag ... gctgggtcagCTG----A--T--T-CTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG
EST: gi|17964059|gb|BM270800.1|BM270800
EST:     ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATGCTGGGTCAG                 
genomic: ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATA-------T--Ggtaagtggag ... gc
EST: gi|26045900|gb|CA783324.1|CA783324
EST:     ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATG                         CTGGGTCAGCTGATTCTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG
genomic: ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATGgtaagtggag ... gctgggtcagCTG----A--T--T-CTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG
EST: gi|192334789|gb|FK025280.1|FK025280
EST:     ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATG                         CTGGGTCAGCTGATTCTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG
genomic: ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATGgtaagtggag ... gctgggtcagCTG----A--T--T-CTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG
EST: gi|151411678|gb|EV281489.1|EV281489
EST:     ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATG                         CTGGGTCAGCTGATTCTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG
genomic: ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATGgtaagtggag ... gctgggtcagCTG----A--T--T-CTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG
EST: gi|192330593|gb|FK022262.1|FK022262
EST:     GCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATGCTGGGTCAG                 
genomic: GCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATA-------T--Ggtaagtggag ... gc
EST: gi|298198662|gb|HO042025.1|HO042025
EST:     ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATG                         CTGATTCTGAAAATGAGACTGCATTGTTGGA
genomic: ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATGgtaagtggag ... gctgggtcagCTGATTCTGAAAATGAGACTGCATTGTTGGA
EST: gi|192330592|gb|FK022261.1|FK022261
EST:     ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATG                         CTGGGTCAGCTGATTCTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG
genomic: ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATGgtaagtggag ... gctgggtcagCTG----A--T--T-CTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG
EST: gi|19346977|gb|BM891857.1|BM891857
EST:     ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATG                         CTGGGTCAGCTGATTCTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG
genomic: ACAAAAGGCTTTTACTACAGCTGCCTCAAAGTTGGAGAAGATTGGATATGgtaagtggag ... gctgggtcagCTG----A--T--T-CTGAAAATGAGACTGCATTGTTGGAATCAAAGACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatttcatatttctgtgcacattaactgaattgtgattcttttagctgggtcagCTGATTCTGAAAATGAGACTGCATTGTTGGAATCAAAGACTGCTAAGGAGACAATTGACATAAAGGAAGTTAAGCGAGTTGATCATATTCTTGCATCCTT
                    cattaac  putative branch site (score: 2)
                                    attctttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgctgtaagccatgtttttggaggtttttaaacaccgaactgttgcatttcatatttctgtgcacattaactgaattgtgattcttttagctgggtcagCTGATTCTGAAAATGAGACTGCATTGTTGGAATCAAAGACTGCTAAGGAGACAATTGACATAAAGGAAGTTAAGCGAGTTGATCATATTCTTGCATCCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - tgtaagc
- - - - - -catgttt
- - - - - - - - - ttggagg
- - - - - - - - - - - - - - - aaacacc
- - - - - - - - - - - - - - - - - - - - - - -gcatttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcacat