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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agctggattagaaattgcagtaagctgcttctgacctcttaaggaatctattgttaatgaaaaatattgatatcgtattctttgttttcattcattccagTATCAAGGAGAGAAGGGTTGGACGCCATCAAAATACCCTGGACTATTGGAGAAGCTTTTAGCAAAGAGCCAAACAGTG

Basic information

species Glycine max
transcript GLYMA07G33380.1
intron # 4
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|207807508|gb|GD777563.1|GD777563
EST:     ATGCTTTAGCTGTCCATGGACGACTCATTGTTATTGGCATGATTTCTCAG                         TATCAAGGAGAGAAGGGTTGGACGCCATCAAAATACCCTGGACTATTGGAG
genomic: ATGCTTTGGCTGTCCATGGACGACTCATTGTTATTGGCATGATTTCTCAGgtttttcttt ... ttcattccagTATCAAGGAGAGAAGGGTTGGACGCCATCAAAATACCCTGGACTATTGGAG
EST: gi|208052055|gb|GD850442.1|GD850442
EST:     ATGCTTTGGCTGTCCATGGACGACTCATTGTTATTGGCATGATTTCTCAG                         TATCAAGGAGAGAGGGGTTGGACGCCATCAAAATACCCTGGACTATTGGAG
genomic: ATGCTTTGGCTGTCCATGGACGACTCATTGTTATTGGCATGATTTCTCAGgtttttcttt ... ttcattccagTATCAAGGAGAGAAGGGTTGGACGCCATCAAAATACCCTGGACTATTGGAG
EST: gi|193484447|gb|FK451587.1|FK451587
EST:     ATGCTTTGGCTGTCCATGGACGACTCATTGTTATTGGCATGATTTCTCAG                         TATCAAGGAGAGAAGGGTTGGACGCCATCAAAATACCCTGGACTATTGGAG
genomic: ATGCTTTGGCTGTCCATGGACGACTCATTGTTATTGGCATGATTTCTCAGgtttttcttt ... ttcattccagTATCAAGGAGAGAAGGGTTGGACGCCATCAAAATACCCTGGACTATTGGAG
EST: gi|193665397|gb|FK613387.1|FK613387
EST:     ATGCTTTGGCTGTCCATGGACGACTCATTGTTATTGGCATGATTTCTCAG                         TATCAAGGAGAGAAGGGTTGGACGCCATCAAAATACCCTGGACTATTGGAG
genomic: ATGCTTTGGCTGTCCATGGACGACTCATTGTTATTGGCATGATTTCTCAGgtttttcttt ... ttcattccagTATCAAGGAGAGAAGGGTTGGACGCCATCAAAATACCCTGGACTATTGGAG
EST: gi|193558487|gb|FK515348.1|FK515348
EST:     ATGCTTTGGCTGTCCATGGACGACTCATTGTTATTGGCATGATTTCTCAG                         TATCAAGGAGAGAAGGGTTGGACGCCATCAAAATACCCTGGACTATTGGNG
genomic: ATGCTTTGGCTGTCCATGGACGACTCATTGTTATTGGCATGATTTCTCAGgtttttcttt ... ttcattccagTATCAAGGAGAGAAGGGTTGGACGCCATCAAAATACCCTGGACTATTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctattgttaatgaaaaatattgatatcgtattctttgttttcattcattccagTATCAAGGAGAGAAGGGTTGGACGCCATCAAAATACCCTGGACTATTGGAGAAGCTTTTAGCAAAGAGCCAAACAGTG
                   tattgat  putative branch site (score: 3)
                                ttctttgttttcattc  putative PPT
     ttgttaatgaaaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agctggattagaaattgcagtaagctgcttctgacctcttaaggaatctattgttaatgaaaaatattgatatcgtattctttgttttcattcattccagTATCAAGGAGAGAAGGGTTGGACGCCATCAAAATACCCTGGACTATTGGAGAAGCTTTTAGCAAAGAGCCAAACAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - -tgcagta
- - - - - - - - - - - - ctgcttc
- - - - - - - - - - - - - - - -tgacctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaata