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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcaatcattgtgatttgatgcgttttatgtgaatcctatctgaatcttatcagttagttatatgttagccttatgtcatctgctttcatttattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCCTGGTGGCTTTAAAGCTGTCTCTCAACTGATCAATGTTGGTAGCAATCCT

Basic information

species Glycine max
transcript GLYMA20G39160.1
intron # 2
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|192329045|gb|FK019716.1|FK019716
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|7588538|gb|AW704261.1|AW704261
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAACCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAACGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|209722455|gb|BW668743.1|BW668743
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|4396007|gb|AI495004.1|AI495004
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|151410767|gb|EV280582.1|EV280582
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|298180094|gb|HO025309.1|HO025309
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         TACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|11274333|gb|BF324701.1|BF324701
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|9564779|gb|BE474288.1|BE474288
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|4290503|gb|AI438083.1|AI438083
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|298188417|gb|HO035110.1|HO035110
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|254333739|gb|GR848657.1|GR848657
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|192299466|gb|FG988750.1|FG988750
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|23726423|gb|BU761204.1|BU761204
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|192297462|gb|FG989871.1|FG989871
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|13478048|gb|BG507685.1|BG507685
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
EST: gi|21993736|gb|BQ785264.1|BQ785264
EST:     TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG                         CACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC
genomic: TTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAGgttcaaatct ... tattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttatcagttagttatatgttagccttatgtcatctgctttcatttattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCCTGGTGGCTTTAAAGCTGTCTCTCAACTGATCAATGTTGGTAGCAATCCT
                                     ctttcattt  CT-rich tract
                                      tttcatttattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcaatcattgtgatttgatgcgttttatgtgaatcctatctgaatcttatcagttagttatatgttagccttatgtcatctgctttcatttattatgcagCACCTCCGGCTGTCCATTTGGTGAAGGATGCCACTTCCTGCATTATGTTCCTGGTGGCTTTAAAGCTGTCTCTCAACTGATCAATGTTGGTAGCAATCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - ttgatgc
- - - - - - - - - - - - - - - - - -ctatctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttatg