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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattgatgtttaacaggatgtgtcccacttctcatatagactgggaacttcagaagaacattgtctgttacctaataattcatttcttatatgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG

Basic information

species Glycine max
transcript GLYMA20G32530.5
intron # 2
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|192325133|gb|FK017519.1|FK017519
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|192295767|gb|FG990847.1|FG990847
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|151399368|gb|EV269239.1|EV269239
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|298189311|gb|HO037714.1|HO037714
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTATAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|192307320|gb|FK002384.1|FK002384
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|151402040|gb|EV271853.1|EV271853
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|298192825|gb|HO033259.1|HO033259
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|10231625|gb|BE800513.1|BE800513
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|298167095|gb|HO010534.1|HO010534
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         GTCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|192323408|gb|FK018999.1|FK018999
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|192313756|gb|FK007320.1|FK007320
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|17023121|gb|BM094155.1|BM094155
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|192313755|gb|FK007319.1|FK007319
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
EST: gi|26058176|gb|CA801090.1|CA801090
EST:     GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAG                         ATCAAGATTACAATCCGAAGATCACTTGTTTTTCTCCGAG
genomic: GCCTTGGTTGGGTTTTTCCTGTTTGCTTCGTACAGACATTGGTCCAGCAGgttagtgaaa ... atgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttcagaagaacattgtctgttacctaataattcatttcttatatgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG
                        acctaat  putative branch site (score: 3)
                           taataattcatttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tattgatgtttaacaggatgtgtcccacttctcatatagactgggaacttcagaagaacattgtctgttacctaataattcatttcttatatgcattcagATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA