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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctaacttctgttccaattttatttatttatttatttatttattgggttggagtgttcctttgtgttgatttcaattgcctgttgcttgtgccttcacagGACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA

Basic information

species Glycine max
transcript GLYMA13G39240.1
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|15337451|gb|BI498107.1|BI498107
EST:     TCGTCTTCTCTTGTTCCTCTTCAAGAATCCACACCAACCCCTCACAATTG                         GACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA
genomic: TCGTCTTCTCTTGTTCCTCTTCAAGAATCCACACCAACCCCTCACAATTGgtacctaact ... gccttcacagGACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA
EST: gi|8284615|gb|BE022174.1|BE022174
EST:     TCGTCTTCTCTTGTTCCTCTTCAAGAATCCACACCAACCCCTCACAATTG                         GACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA
genomic: TCGTCTTCTCTTGTTCCTCTTCAAGAATCCACACCAACCCCTCACAATTGgtacctaact ... gccttcacagGACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA
EST: gi|192310347|gb|FK002227.1|FK002227
EST:     TCAAGAATCCACACCAACCCCTCACAATTG                         GACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA
genomic: TCAAGAATCCACACCAACCCCTCACAATTGgtacctaact ... gccttcacagGACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA
EST: gi|151394123|gb|EV263994.1|EV263994
EST:     TCGTCTTCTCTTGTTCCTCTTCAAGAATCCACACCAACCCCTCACAATTG                         GACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA
genomic: TCGTCTTCTCTTGTTCCTCTTCAAGAATCCACACCAACCCCTCACAATTGgtacctaact ... gccttcacagGACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA
EST: gi|192310346|gb|FK002226.1|FK002226
EST:     TCGTCTTCTCTTGTTCCTCTTCAAGAATCCACACCAACCCCTCACAATTG                         GACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA
genomic: TCGTCTTCTCTTGTTCCTCTTCAAGAATCCACACCAACCCCTCACAATTGgtacctaact ... gccttcacagGACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttggagtgttcctttgtgttgatttcaattgcctgttgcttgtgccttcacagGACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA
                  tgttgat  putative branch site (score: 4)
                                            tgccttc  putative PPT
                       atttcaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacctaacttctgttccaattttatttatttatttatttatttattgggttggagtgttcctttgtgttgatttcaattgcctgttgcttgtgccttcacagGACCAAAGGAATTTGCAGCACTCTGGAGTTGCCTTGGTCATTGGCGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA