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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gattcatggtttatttctttgttagtctacttttcggttcatttttgaatttcttggtttgaccctttattaatttctcttttctttctggtgatttcagAATGAAGAATTTGTTTTTGTGTTGGAAAATGGAGTCATTCCTCGAACTCACAGCGTTAAAGGGACTAATTACTGTTTAATCAATGTTTTTCCAGACCGAA

Basic information

species Glycine max
transcript GLYMA07G29630.1
intron # 12
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|21600469|gb|BQ610800.1|BQ610800
EST:     GAGGACCTGTACCAGCAACTGAAGCTCTCATATGAG                         AATGAAGAATTTGTTTTTGTGTTGGAAAATGGAGTCATTCCTCGAACTCAC
genomic: GAGGACCTGTACCAGCAACTGAAGCTCTCATATGAGgtttgtcttt ... gtgatttcagAATGAAGAATTTGTTTTTGTGTTGGAAAATGGAGTCATTCCTCGAACTCAC
EST: gi|57575030|gb|CX548005.1|CX548005
EST:     CAGGAGTGAGAATTGAGGACCTGTACCAGCAACTGAAGCTCTCATATGAG                         AATGAAGAATTTGTTTTTGTGTTGGAAAATGGAGTCATTCCTCGAACTCAC
genomic: CAGGAGTGAGAATTGAGGACCTGTACCAGCAACTGAAGCTCTCATATGAGgtttgtcttt ... gtgatttcagAATGAAGAATTTGTTTTTGTGTTGGAAAATGGAGTCATTCCTCGAACTCAC
EST: gi|193389707|gb|FK355796.1|FK355796
EST:     CAGGAGTGAGAATTGAGGACCTGTACCAGCAACTGAAGCTCTCATATGAG                         AATGAAGAATTTGTTTT-GTGTTGGAAAATGGAGTCATTCCTCGAACTCAC
genomic: CAGGAGTGAGAATTGAGGACCTGTACCAGCAACTGAAGCTCTCATATGAGgtttgtcttt ... gtgatttcagAATGAAGAATTTGTTTTTGTGTTGGAAAATGGAGTCATTCCTCGAACTCAC
EST: gi|207810719|gb|GD782052.1|GD782052
EST:     CAGGAGTGAGAATTGAGGACCTGTACCAGCAACTGAAGCTCTCATATGAG                         GACGAAGAATTTGTTGTTGTGTTGGAAAATGGAGCCATTCCTCGAACTCAC
genomic: CAGGAGTGAGAATTGAGGACCTGTACCAGCAACTGAAGCTCTCATATGAGgtttgtcttt ... gtgatttcagAATGAAGAATTTGTTTTTGTGTTGGAAAATGGAGTCATTCCTCGAACTCAC
EST: gi|208134794|gb|GD927463.1|GD927463
EST:     CAGGAGTGAGAATTGAGGACCTGTACCGGCAACTGAAGCTCTCATATGAG                         AATGAAGAATTT
genomic: CAGGAGTGAGAATTGAGGACCTGTACCAGCAACTGAAGCTCTCATATGAGgtttgtcttt ... gtgatttcagAATGAAGAATTT
EST: gi|58016973|gb|CX703715.1|CX703715
EST:     CAGGAGTGAGAATTGAGGACCTGTACCAGCAACTGAAGCTCTCATATGAG                         AATGAAGAATTTGTTTTTGTGTTGGAAAATGGAGTCATTCCTCGAACTCAC
genomic: CAGGAGTGAGAATTGAGGACCTGTACCAGCAACTGAAGCTCTCATATGAGgtttgtcttt ... gtgatttcagAATGAAGAATTTGTTTTTGTGTTGGAAAATGGAGTCATTCCTCGAACTCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaatttcttggtttgaccctttattaatttctcttttctttctggtgatttcagAATGAAGAATTTGTTTTTGTGTTGGAAAATGGAGTCATTCCTCGAACTCACAGCGTTAAAGGGACTAATTACTGTTTAATCAATGTTTTTCCAGACCGAA
                      tattaat  putative branch site (score: 2)
                            tttctcttttctttct  CT-rich tract
                    tttattaatttctctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gattcatggtttatttctttgttagtctacttttcggttcatttttgaatttcttggtttgaccctttattaatttctcttttctttctggtgatttcagAATGAAGAATTTGTTTTTGTGTTGGAAAATGGAGTCATTCCTCGAACTCACAGCGTTAAAGGGACTAATTACTGTTTAATCAATGTTTTTCCAGACCGAA

- ttcatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - tggtttg