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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggagtattcttctttcgtatctttaatcaatagtaatcgtgattagtactgaactcactttcttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCATATTCTTCAG

Basic information

species Glycine max
transcript GLYMA03G38520.1
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|192323979|gb|FK015700.1|FK015700
EST:     TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAG                         ATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
genomic: TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAGgtaggagtat ... ttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
EST: gi|192329589|gb|FK021903.1|FK021903
EST:     TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAG                         ATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
genomic: TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAGgtaggagtat ... ttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
EST: gi|151398613|gb|EV268484.1|EV268484
EST:     TGCTTCCCCTAGTAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAG                         ATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
genomic: TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAGgtaggagtat ... ttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
EST: gi|19346536|gb|BM891416.1|BM891416
EST:     TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAG                         ATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
genomic: TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAGgtaggagtat ... ttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
EST: gi|120532302|gb|EH260435.1|EH260435
EST:     TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAG                         ATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
genomic: TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAGgtaggagtat ... ttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
EST: gi|6134067|gb|AW132396.1|AW132396
EST:     TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAG                         ATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
genomic: TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAGgtaggagtat ... ttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
EST: gi|18713013|gb|BM522699.1|BM522699
EST:     TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAG                         ATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
genomic: TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAGgtaggagtat ... ttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
EST: gi|192308925|gb|FK002149.1|FK002149
EST:     TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAG                         ATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
genomic: TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAGgtaggagtat ... ttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
EST: gi|151411964|gb|EV281775.1|EV281775
EST:     GCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAG                         ATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
genomic: GCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAGgtaggagtat ... ttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
EST: gi|105634074|gb|DW247372.1|DW247372
EST:     TAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAG                         ATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAACTTAACTCTCAT
genomic: TAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAGgtaggagtat ... ttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
EST: gi|10238899|gb|BE807795.1|BE807795
EST:     TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAG                         ATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAACTTAACTCTCAT
genomic: TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAGgtaggagtat ... ttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
EST: gi|9986530|gb|BE660638.1|BE660638
EST:     TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAG                         ATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT
genomic: TGCTTCCCCTAGCAACCTTCTTCTTACTTCTCTCCGCTTCTTATCTCCAGgtaggagtat ... ttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatctttaatcaatagtaatcgtgattagtactgaactcactttcttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCATATTCTTCAG
                                  aactcac  putative branch site (score: 2)
                                    ctcactttcttctt  CT-rich tract
     ttaatcaatagtaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggagtattcttctttcgtatctttaatcaatagtaatcgtgattagtactgaactcactttcttcttgacagATTGCTGGGGCGGAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCATATTCTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT