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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgaaaatgagactcgatctggcgagttcttaacctgattttgctgcttcgtgttgttcactaatcactgtgttgcgtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAGCCTTGAGGCTCTCCGAACGACTCAGAGAAAAGGCCGTTGAAGAG

Basic information

species Glycine max
transcript GLYMA08G05100.1
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|193479800|gb|FK445481.1|FK445481
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAGCCTTGAGGC
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAGCCTTGAGGC
EST: gi|193306658|gb|FK272864.1|FK272864
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGAT
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGAT
EST: gi|193480200|gb|FK444618.1|FK444618
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAG
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAG
EST: gi|208053704|gb|GD850593.1|GD850593
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTAT
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTAT
EST: gi|207809745|gb|GD782379.1|GD782379
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
EST: gi|193687812|gb|FK631739.1|FK631739
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTA
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTA
EST: gi|207775503|gb|GD746878.1|GD746878
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAA
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAA
EST: gi|208087557|gb|GD887647.1|GD887647
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
EST: gi|193555690|gb|FK513237.1|FK513237
EST:     TTCGGATCCGGCGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAGCCTTGAGGC
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAGCCTTGAGGC
EST: gi|193686676|gb|FK626083.1|FK626083
EST:     CAATCGGTTGGAGAGTGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAGCCTTGAGGC
genomic: CAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAGCCTTGAGGC
EST: gi|193696714|gb|FK637940.1|FK637940
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
EST: gi|193663904|gb|FK611244.1|FK611244
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAA
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAA
EST: gi|207778597|gb|GD749384.1|GD749384
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
EST: gi|208337330|gb|GE133410.1|GE133410
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGA
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGA
EST: gi|193360405|gb|FK328059.1|FK328059
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
EST: gi|193527711|gb|FK485901.1|FK485901
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
EST: gi|193365836|gb|FK328969.1|FK328969
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG
EST: gi|193366606|gb|FK332384.1|FK332384
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGAT
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGAT
EST: gi|207737366|gb|GD716950.1|GD716950
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAGCCTTGAGGC
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAGCCTTGAGGC
EST: gi|193349241|gb|FK314033.1|FK314033
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGA
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGA
EST: gi|193442862|gb|FK404240.1|FK404240
EST:     TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAG                         ATAAGGACAGAGAATTATCAGAAGCGCAGGCG-AGATCAAAG
genomic: TTCGGATCCGGTGAAGGTGGAGCTCAATCGGTTGGAGAATGAAGTGAGAGgtgcgaaaat ... gtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacctgattttgctgcttcgtgttgttcactaatcactgtgttgcgtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAGCCTTGAGGCTCTCCGAACGACTCAGAGAAAAGGCCGTTGAAGAG
                           cactaat  putative branch site (score: 2)
      atttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgaaaatgagactcgatctggcgagttcttaacctgattttgctgcttcgtgttgttcactaatcactgtgttgcgtgtttgtagATAAGGACAGAGAATTATCAGAAGCGCAGGCGGAGATCAAAGCCTTGAGGCTCTCCGAACGACTCAGAGAAAAGGCCGTTGAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA