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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatactccataaacatgtattgaatcaacagatagcaatttcagcactgcaatatgtaattggagtatgatcctagttgttttgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATCAGAGCACAAGTGACCACAGAGGCACCTGCTAAGGTTGAAAAGGAATCAA

Basic information

species Glycine max
transcript GLYMA11G08230.1
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|213619649|gb|DB965595.1|DB965595
EST:     TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAG                         GTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
genomic: TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAGgtatactcca ... tgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
EST: gi|120534406|gb|EH262539.1|EH262539
EST:     TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAG                         GTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
genomic: TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAGgtatactcca ... tgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
EST: gi|120531288|gb|EH259421.1|EH259421
EST:     TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAG                         GTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
genomic: TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAGgtatactcca ... tgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
EST: gi|213591411|gb|DB955731.1|DB955731
EST:     TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAG                         GTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
genomic: TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAGgtatactcca ... tgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
EST: gi|192306166|gb|FG995030.1|FG995030
EST:     TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAG                         GTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
genomic: TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAGgtatactcca ... tgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
EST: gi|16105591|gb|BI893331.1|BI893331
EST:     TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAG                         GTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
genomic: TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAGgtatactcca ... tgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
EST: gi|19452306|gb|BM953716.1|BM953716
EST:     TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAG                         GTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
genomic: TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAGgtatactcca ... tgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
EST: gi|298172788|gb|HO020342.1|HO020342
EST:     TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAG                         GTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
genomic: TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAGgtatactcca ... tgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
EST: gi|120531728|gb|EH259861.1|EH259861
EST:     TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAG                         GTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
genomic: TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAGgtatactcca ... tgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
EST: gi|209725524|gb|BW677823.1|BW677823
EST:     TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAG                         GTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
genomic: TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAGgtatactcca ... tgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
EST: gi|120531421|gb|EH259554.1|EH259554
EST:     TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAG                         GTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
genomic: TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAGgtatactcca ... tgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
EST: gi|18693009|gb|BM521857.1|BM521857
EST:     TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAG                         GTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC
genomic: TTTCAAGCAGAACCTCTATCACTGCCCCAGATAGAATTGTCTTCAAGAAGgtatactcca ... tgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttcagcactgcaatatgtaattggagtatgatcctagttgttttgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATCAGAGCACAAGTGACCACAGAGGCACCTGCTAAGGTTGAAAAGGAATCAA
                                          ttttgtttc  CT-rich tract
             aatatgtaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatactccataaacatgtattgaatcaacagatagcaatttcagcactgcaatatgtaattggagtatgatcctagttgttttgtttcgcagGTTTCGTTGCAATACAGAGATGTTTCAACCAGTGGAAGGGTAGTTTCAATCAGAGCACAAGTGACCACAGAGGCACCTGCTAAGGTTGAAAAGGAATCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA