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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACAATTCCAATTCCTCTGGATCTCGTCTCGATCGATCGATCTCGAACATGAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttccattttcctttctcttcttcttcttcttctattgtagggtttccgtcgcacctctctcatttcccctttctttgttcgttcgtgcttttag

Basic information

species Glycine max
transcript GLYMA05G04580.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G04580.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv02s0154g00500.t01 (Vitis vinifera), 5'ss of exon 1
CACAATTCCAATTCCTCTGGATCTCGTCTCGATCGATCGATCTCGAACATGAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgag--tttccattttcc-tttctcttcttcttcttcttctattgtagggtttccgtcgcacctctctcatttcccctttctttgttcgttcgtgcttttag
                                                |||||||| || |||||||||| |||||||||||| ||||| |||||||| ||| ||  ||||   |||   | | | ||| ||   |   ||| ||    | |||   |      | |||  ||| || ||||| | ||| ||| ||       
------------------------------------------------ATGAGCACGGGAGAGCTTCTCAGCATCGAACCTCTGGAACTTAAGTTCCCTTgtaagcatttctgctttggatctgttttcgtcgaatatatcttttccgcgttttgatttctttttttcttttttaccatttctgttttc-ttcttggaaag--
















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|298197354|gb|HO044833.1|HO044833
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|298187165|gb|HO034314.1|HO034314
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|7925879|gb|AW831905.1|AW831905
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|192326599|gb|FK018846.1|FK018846
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|8283114|gb|BE020675.1|BE020675
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|298194582|gb|HO043054.1|HO043054
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|7588116|gb|AW703919.1|AW703919
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|192320302|gb|FK013392.1|FK013392
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|33390081|gb|CA853288.1|CA853288
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|209700050|gb|BW656218.1|BW656218
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|298185938|gb|HO031099.1|HO031099
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCCGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|192324904|gb|FK015385.1|FK015385
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|18041004|gb|BM309298.1|BM309298
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|10848335|gb|BF070847.1|BF070847
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|298189123|gb|HO037526.1|HO037526
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|10843377|gb|BF067174.1|BF067174
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
EST: gi|298169114|gb|HO020474.1|HO020474
EST:     GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCT                         TTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG
genomic: GAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttcc ... gtgcttttagTTGAGCTGAAGAAGCAGATCTCATGTTCTCTTCAATTGTCCAATAAGACCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CACAATTCCAATTCCTCTGGATCTCGTCTCGATCGATCGATCTCGAACATGAGCACTGGGGAGCTTCTCAACATCGAACCTCTCGAACTCAAGTTCCCCTgtgagtttccattttcctttctcttcttcttcttcttctattgtagggtttccgtcgcacctctctcatttcccctttctttgttcgttcgtgcttttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT