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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gccacattttattaagtgggtcattaaattttgcttattatatattcattatattgtatatgtatatcttcttgactctgtcttcactgtttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAAGTTTTGGAAGCAATGTCTCATAGAATGCATGTAGACAACAGTGTAAAAC

Basic information

species Glycine max
transcript GLYMA17G34900.2
intron # 7
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|254338257|gb|GR849782.1|GR849782
EST:     CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAG                         TTCCGCAAAGCTCCTGAGGGTTCTCTCAG-AAAAATGCAGCTCAGAAAACA
genomic: CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAGgtatcttgtt ... ttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAA-CA
EST: gi|26048896|gb|CA785349.1|CA785349
EST:     CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAG                         TTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
genomic: CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAGgtatcttgtt ... ttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
EST: gi|298164624|gb|HO014269.1|HO014269
EST:     CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAG                         TTCCGCAAAGCTCCTG
genomic: CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAGgtatcttgtt ... ttattgccagTTCCGCAAAGCTCCTG
EST: gi|10231540|gb|BE800428.1|BE800428
EST:     CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATNTTTGGGATAAG                         TTCCGCAAAGCTCCTGAGGGTTCTCTCATGANAAATGCAGCTCAGAAACAA
genomic: CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAGgtatcttgtt ... ttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
EST: gi|120491730|gb|EH219897.1|EH219897
EST:     CGAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAG                         TTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
genomic: CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAGgtatcttgtt ... ttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
EST: gi|15662601|gb|BI699972.1|BI699972
EST:     CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAG                         TTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
genomic: CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAGgtatcttgtt ... ttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
EST: gi|120529568|gb|EH257702.1|EH257702
EST:     CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTCTGGGATAAG                         TTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACCA
genomic: CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAGgtatcttgtt ... ttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
EST: gi|120532448|gb|EH260581.1|EH260581
EST:     CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAG                         TTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
genomic: CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAGgtatcttgtt ... ttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
EST: gi|9902841|gb|BE611809.1|BE611809
EST:     CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAG                         TTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
genomic: CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAGgtatcttgtt ... ttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
EST: gi|9986535|gb|BE660643.1|BE660643
EST:     CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAG                         TTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
genomic: CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAGgtatcttgtt ... ttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
EST: gi|15199399|gb|BI423811.1|BI423811
EST:     CAGAAC-AGGCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATA-G                         CTCCGCAAAGCTCC
genomic: CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAGgtatcttgtt ... ttattgccagTTCCGCAAAGCTCC
EST: gi|120533615|gb|EH261748.1|EH261748
EST:     CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAG                         TTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA
genomic: CAAAACCAGTCAACCAACGTGATGCTGATCTCATCCATTTTTGGGATAAGgtatcttgtt ... ttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattatattgtatatgtatatcttcttgactctgtcttcactgtttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAAGTTTTGGAAGCAATGTCTCATAGAATGCATGTAGACAACAGTGTAAAAC
                        tcttgac  putative branch site (score: 3)
     atattgtatatgtata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gccacattttattaagtgggtcattaaattttgcttattatatattcattatattgtatatgtatatcttcttgactctgtcttcactgtttattgccagTTCCGCAAAGCTCCTGAGGGTTCTCTCAGGAAAAATGCAGCTCAGAAACAAGTTTTGGAAGCAATGTCTCATAGAATGCATGTAGACAACAGTGTAAAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA