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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attaatataatgccacatggcagatatgtactgagcttttttacagatcttgctgttgctaatatgtatcaacatcctaatgaaacaataatttttccagGGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGCTATGGAACTTCTCGGCAAAGTGAACCAGCAAATTCAGGATCCCAGGGGG

Basic information

species Glycine max
transcript GLYMA09G38650.2
intron # 5
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|20813953|gb|BQ298431.1|BQ298431
EST:     TAATTCTACCTCAGGGAATGGTTTCAGTGCCTGGGTGGAGTGCATACAGT                         GGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC
genomic: TAATTCTACCTCAGGGAATGGTTTCAGTGCCTGGGTGGAGTGCATACAGTgtaagctcat ... atttttccagGGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC
EST: gi|9204745|gb|BE330969.1|BE330969
EST:     TAATTCTACCTCAGGGAATGGTTTCAGTGCCTGGGTGGAGTGCATACAGT                         GGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC
genomic: TAATTCTACCTCAGGGAATGGTTTCAGTGCCTGGGTGGAGTGCATACAGTgtaagctcat ... atttttccagGGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC
EST: gi|5508891|gb|AI855449.1|AI855449
EST:     TAATTCTACCTCAGGGAATGGTTTCAGTGCCTGGGTGGAGTGCATACAGT                         GGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC
genomic: TAATTCTACCTCAGGGAATGGTTTCAGTGCCTGGGTGGAGTGCATACAGTgtaagctcat ... atttttccagGGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC
EST: gi|23728273|gb|BU762185.1|BU762185
EST:     GGTTTCAGTGCCTGGGTGGAGTGCATACAGT                         GGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC
genomic: GGTTTCAGTGCCTGGGTGGAGTGCATACAGTgtaagctcat ... atttttccagGGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC
EST: gi|26057548|gb|CA800462.1|CA800462
EST:     TAATTCTACCTCAGGGAATGGTTTCAGTGCCTGGGTGGAGTGCATACAGT                         GGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC
genomic: TAATTCTACCTCAGGGAATGGTTTCAGTGCCTGGGTGGAGTGCATACAGTgtaagctcat ... atttttccagGGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC
EST: gi|14991679|gb|BI317352.1|BI317352
EST:     TAATTCTACCTCAGGGAATGGTTTCAGTGCCTGGGTGGAGTGCATACAGT                         GGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC
genomic: TAATTCTACCTCAGGGAATGGTTTCAGTGCCTGGGTGGAGTGCATACAGTgtaagctcat ... atttttccagGGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC
EST: gi|15000058|gb|BI320872.1|BI320872
EST:     CTGGGTGGAGTGCATACAGT                         GGTCAAATGGGATCAGACAGTCCACAGCAAACAATGGCAAATGGCCAAAGC
genomic: CTGGGTGGAGTGCATACAGTgtaagctcat ... atttttccagGGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatcttgctgttgctaatatgtatcaacatcctaatgaaacaataatttttccagGGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGCTATGGAACTTCTCGGCAAAGTGAACCAGCAAATTCAGGATCCCAGGGGG
                             tcctaat  putative branch site (score: 2)
                                              tttttcc  putative PPT
                                taatgaaacaataatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attaatataatgccacatggcagatatgtactgagcttttttacagatcttgctgttgctaatatgtatcaacatcctaatgaaacaataatttttccagGGTCAAATGGGATCAGACAGTCCTCAGCAAACAATGGGAAATGGCCAAAGCTATGGAACTTCTCGGCAAAGTGAACCAGCAAATTCAGGATCCCAGGGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG