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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaaaactactgattcctgaaatcttttgtccatcatcagttacactgattctgacgaagttaatgttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCTGAATCAAAGACGGAAGCTGGGGAAGACACCAAGGAAGAGGGTGTACAT

Basic information

species Glycine max
transcript GLYMA20G23080.1
intron # 11
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|31474449|gb|CD416477.1|CD416477
EST:     GAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|213591613|gb|DB975302.1|DB975302
EST:     GAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|254348440|gb|GR852119.1|GR852119
EST:     GAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|9900782|gb|BE609750.1|BE609750
EST:     GAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|9440151|gb|BE440661.1|BE440661
EST:     GAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|10848082|gb|BF070635.1|BF070635
EST:     GAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|31455934|gb|CD397962.1|CD397962
EST:     GAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|6914827|gb|AW396357.1|AW396357
EST:     GAGGAGGAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAGGAGGAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|7285731|gb|AW598218.1|AW598218
EST:     GAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|6913405|gb|AW394935.1|AW394935
EST:     CAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: CAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|13482210|gb|BG511553.1|BG511553
EST:     GAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|213601764|gb|DB982489.1|DB982489
EST:     GAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|193640916|gb|FK588947.1|FK588947
EST:     GGAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GGAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|254348439|gb|GR852118.1|GR852118
EST:     GAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
EST: gi|193555675|gb|FK513222.1|FK513222
EST:     GAATCAAAGGATGACCCAGTTGACTCTGAT                         GCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT
genomic: GAATCAAAGGATGACCCAGTTGACTCTGATgtaagtaaaa ... ttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttttgtccatcatcagttacactgattctgacgaagttaatgttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCTGAATCAAAGACGGAAGCTGGGGAAGACACCAAGGAAGAGGGTGTACAT
                                           tgttttct  CT-rich tract
                                       ttaatgttttctata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtaaaactactgattcctgaaatcttttgtccatcatcagttacactgattctgacgaagttaatgttttctatagGCTGATGAGGAAGAGGAAGATGCTGATGAAGCTGGCAATGACTCCGATGCTGAATCAAAGACGGAAGCTGGGGAAGACACCAAGGAAGAGGGTGTACAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG