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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttatgctcttttattagttattttttctgattttttttaatacatgtttgtttctgttttgcatttgaccttggctcatattgttgttttgtctgtagATAGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAATGGACGGCCATATGGGAATGAGGAAAATCAGTTCTCACTGCTCTATCCC

Basic information

species Glycine max
transcript GLYMA10G35890.1
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|193460050|gb|FK426595.1|FK426595
EST:     ACCGTCGTTTCCGCCGGACACTCTCTTCCCCCGTCGCCGTCCTCCTTCAG                         ATAGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAA
genomic: ACCGTCGTTTCCGCCGGACACTCTCTTCCCCCGTCGCCGTCCTCCTTCAGgttctctccc ... ttgtctgtagATAGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAA
EST: gi|193662810|gb|FK603248.1|FK603248
EST:     ACCGTCGTTTCCGCCGGACACTCTCTTCCCCCGTCGCCGTCCTCCTTC--                         --AGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAA
genomic: ACCGTCGTTTCCGCCGGACACTCTCTTCCCCCGTCGCCGTCCTCCTTCAGgttctctccc ... ttgtctgtagATAGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAA
EST: gi|193486059|gb|FK452190.1|FK452190
EST:     ACCGTCGTTTCCGCCGGACACTCTCTTCCCCCGTCGCCGTCCTCCTTCAG                         ATAGTATCTATTTTTGATATAA
genomic: ACCGTCGTTTCCGCCGGACACTCTCTTCCCCCGTCGCCGTCCTCCTTCAGgttctctccc ... ttgtctgtagATAGTATCTATTTTTGATATAA
EST: gi|208244242|gb|GE039417.1|GE039417
EST:     ACCGTCGTTTCCGCCGGACACTCTCTTCCCCCGTCGCCGTCCTCCTTCAG                         ATAGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAA
genomic: ACCGTCGTTTCCGCCGGACACTCTCTTCCCCCGTCGCCGTCCTCCTTCAGgttctctccc ... ttgtctgtagATAGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAA
EST: gi|193457651|gb|FK424943.1|FK424943
EST:     ACCGTCGTTTCCGCCGGACACTCTCTTCCCCCGTCGCCGTCCTCCTTCAG                         ATAGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAA
genomic: ACCGTCGTTTCCGCCGGACACTCTCTTCCCCCGTCGCCGTCCTCCTTCAGgttctctccc ... ttgtctgtagATAGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAA
EST: gi|193626503|gb|FK575737.1|FK575737
EST:     CCGCCGGACACTCTCTTCCCCCGTCGCCGTCCTCCTTCAG                         ATAGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAA
genomic: CCGCCGGACACTCTCTTCCCCCGTCGCCGTCCTCCTTCAGgttctctccc ... ttgtctgtagATAGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtttgtttctgttttgcatttgaccttggctcatattgttgttttgtctgtagATAGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAATGGACGGCCATATGGGAATGAGGAAAATCAGTTCTCACTGCTCTATCCC
                   atttgac  putative branch site (score: 4)
                                           ttttgtct  putative PPT
                                  atattgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttatgctcttttattagttattttttctgattttttttaatacatgtttgtttctgttttgcatttgaccttggctcatattgttgttttgtctgtagATAGTATCTATTTTTGATATAATCGTTCCGTTATTAGAGAAGTTGAGAAAATGGACGGCCATATGGGAATGAGGAAAATCAGTTCTCACTGCTCTATCCC

- -tatgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgtt