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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttggttggttcactattcttcctcttgctctgcctttaaatacttagtggctgttttcacgttttgactctttataacggttctttcttcatgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGATTGGAATGG

Basic information

species Glycine max
transcript GLYMA09G38110.2
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|7478607|gb|AW666332.1|AW666332
EST:     CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAG                         AAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
genomic: CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAGgttagttact ... catgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
EST: gi|209723248|gb|BW675195.1|BW675195
EST:     ACACAGTTACGCTCTTCAAATCAATCTCTTCTCAG                         AAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
genomic: ACACAGTTACGCTCTTCAAATCAATCTCTTCTCAGgttagttact ... catgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
EST: gi|213592755|gb|DB957813.1|DB957813
EST:     CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAG                         AAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
genomic: CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAGgttagttact ... catgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
EST: gi|24206076|gb|BU965329.1|BU965329
EST:     CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAG                         AAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
genomic: CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAGgttagttact ... catgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
EST: gi|213607123|gb|DB967000.1|DB967000
EST:     CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAG                         AAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
genomic: CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAGgttagttact ... catgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
EST: gi|213602215|gb|DB958475.1|DB958475
EST:     ACACAGTTACGCTCTTCAAATCAATCTCTTCTCAG                         AAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
genomic: ACACAGTTACGCTCTTCAAATCAATCTCTTCTCAGgttagttact ... catgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
EST: gi|120531587|gb|EH259720.1|EH259720
EST:     CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAG                         AAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
genomic: CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAGgttagttact ... catgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
EST: gi|5342420|gb|AI794704.1|AI794704
EST:     CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAG                         AAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
genomic: CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAGgttagttact ... catgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
EST: gi|9564245|gb|BE473754.1|BE473754
EST:     CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAG                         AAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
genomic: CTTCAGATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAGgttagttact ... catgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
EST: gi|213617416|gb|DB965231.1|DB965231
EST:     ACACAGTTACGCTCTTCAAATCAATCTCTTCTCAG                         AAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
genomic: ACACAGTTACGCTCTTCAAATCAATCTCTTCTCAGgttagttact ... catgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
EST: gi|298183011|gb|HO028274.1|HO028274
EST:     GCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAG                         AAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
genomic: GCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAGgttagttact ... catgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
EST: gi|6567285|gb|AW234896.1|AW234896
EST:     GATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAG                         AAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA
genomic: GATCAAACGCACACAGTTACGCTCTTCAAATCAATCTCTTCTCAGgttagttact ... catgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtggctgttttcacgttttgactctttataacggttctttcttcatgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGATTGGAATGG
                           ttataac  putative branch site (score: 2)
                                    ttctttcttcatgttc  putative PPT
                        tctttataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttggttggttcactattcttcctcttgctctgcctttaaatacttagtggctgttttcacgttttgactctttataacggttctttcttcatgttccagAAATGGGTGTGGCTCAAAACATTCCCGATGCGGAGGAGGGAACCTTGGAGATTGGAATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- tggttgg
- - - - - - - - - cttcctc
- - - - - - - - - - - - - - ctctgcc
- - - - - - - - - - - - - - - - - - - - - - - - tggctgt