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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGAAGACAAGGCCGTGTCATCACTCGCTGCCAAATGGAAGGGCAAGAGTGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagcttttataaaattaacacgtttccacaccttaaacctaattataacttctagtactaattattacatgataaataagtttatattagctttc...

Basic information

species Glycine max
transcript GLYMA20G38570.1
intron # 2
splice site 5'
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|254313744|gb|GR831373.1|GR831373
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
EST: gi|151401078|gb|EV270892.1|EV270892
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
EST: gi|151413247|gb|EV283055.1|EV283055
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATC-AAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
EST: gi|23057621|gb|BU578246.1|BU578246
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
EST: gi|37996139|gb|CF807728.1|CF807728
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
EST: gi|38192772|gb|CF921978.1|CF921978
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
EST: gi|192323410|gb|FK019001.1|FK019001
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
EST: gi|7924175|gb|AW830201.1|AW830201
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
EST: gi|58020340|gb|CX707082.1|CX707082
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
EST: gi|16105139|gb|BI892879.1|BI892879
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
EST: gi|192324631|gb|FK016822.1|FK016822
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATC-AAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
EST: gi|5342646|gb|AI794930.1|AI794930
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
EST: gi|15204524|gb|BI427292.1|BI427292
EST:     TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAG                         GCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC
genomic: TGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagct ... tattaattagGCCCCTTTGAGAAGTTAATTCGAGGGTCAAAGTTAAGAACATTGGATGGTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGGAAGACAAGGCCGTGTCATCACTCGCTGCCAAATGGAAGGGCAAGAGTGCAGCTGAATTGCTCGACTCCCTTGACTTCTACAGAGATATCATCAAAGgtactaagcttttataaaattaacacgtttccacaccttaaacctaattataacttctagtactaattattacatgataaataagtttatattagctttc

- - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccacacc