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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaaaaggaaatcaaatagactcagagaactgcatttaggttgtcttttgtttttatgatttcagaaaaaattataactttgggttttggtttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATAAAGTAGTTGTGTTTATGAAGGGAACTAAAGATTTTCCACAGTGTGGATT

Basic information

species Glycine max
transcript GLYMA09G38760.1
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|298177465|gb|HO023598.1|HO023598
EST:     CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGG                         CATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
genomic: CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGGgtactactgc ... tttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
EST: gi|298174100|gb|HO017436.1|HO017436
EST:     CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGG                         CATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
genomic: CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGGgtactactgc ... tttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
EST: gi|298196359|gb|HO044750.1|HO044750
EST:     CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGG                         CATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
genomic: CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGGgtactactgc ... tttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
EST: gi|192306447|gb|FG996179.1|FG996179
EST:     CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGG                         CATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
genomic: CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGGgtactactgc ... tttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
EST: gi|7028347|gb|AW458130.1|AW458130
EST:     CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGG                         CATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
genomic: CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGGgtactactgc ... tttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
EST: gi|192318397|gb|FK006517.1|FK006517
EST:     CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGG                         CATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
genomic: CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGGgtactactgc ... tttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
EST: gi|9821038|gb|BE556548.1|BE556548
EST:     TTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCCTCG-                         CATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAAT
genomic: TTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCC-TCGGgtactactgc ... tttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAAT
EST: gi|17964129|gb|BM270869.1|BM270869
EST:     CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGG                         CATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
genomic: CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGGgtactactgc ... tttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
EST: gi|209721061|gb|BW666320.1|BW666320
EST:     CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGG                         CATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
genomic: CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGGgtactactgc ... tttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
EST: gi|151394642|gb|EV264513.1|EV264513
EST:     CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGG                         CATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
genomic: CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGGgtactactgc ... tttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
EST: gi|192306462|gb|FG996180.1|FG996180
EST:     CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGG                         CATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
genomic: CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGGgtactactgc ... tttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
EST: gi|209721060|gb|BW666319.1|BW666319
EST:     CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGG                         CATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA
genomic: CTTCCAACCCAAACTCAAACGCGCTTCCACAACCGTTCGATGCTCCTCGGgtactactgc ... tttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgtttttatgatttcagaaaaaattataactttgggttttggtttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATAAAGTAGTTGTGTTTATGAAGGGAACTAAAGATTTTCCACAGTGTGGATT
                          ttataac  putative branch site (score: 2)
                                             tttgtttc  putative PPT
     tttttatgatttcaga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaaaaggaaatcaaatagactcagagaactgcatttaggttgtcttttgtttttatgatttcagaaaaaattataactttgggttttggtttgtttcagCATTGACTCCTCAATTGAAGTCTACCTTGGATCAAGTTATTGCTTCAAATAAAGTAGTTGTGTTTATGAAGGGAACTAAAGATTTTCCACAGTGTGGATT

- -aaaggaaa
- - - - - - - - - - - - - - - tgcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggttttg