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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctcttctggaaaatcaaagatttgaaaatttatctaaaatcaattatttattctcctttgctcgcattctcagtcactctttcggtgtttgctttcagATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGTTAGACTTCAA

Basic information

species Glycine max
transcript GLYMA16G25220.2
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|298183131|gb|HO028394.1|HO028394
EST:     GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCA                         ATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGT
genomic: GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCAgtaatccctc ... ttgctttcagATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGT
EST: gi|298190530|gb|HO032651.1|HO032651
EST:     GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCA                         ATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGT
genomic: GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCAgtaatccctc ... ttgctttcagATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGT
EST: gi|22540274|gb|BU090117.1|BU090117
EST:     GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCA                         ATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGT
genomic: GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCAgtaatccctc ... ttgctttcagATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGT
EST: gi|15286034|gb|BI469925.1|BI469925
EST:     GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCA                         ATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGT
genomic: GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCAgtaatccctc ... ttgctttcagATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGT
EST: gi|193720627|gb|FK657769.1|FK657769
EST:     GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGTA                         ATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGTAAAG
genomic: GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCAgtaatccctc ... ttgctttcagATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAG-AAAG
EST: gi|207810450|gb|GD781140.1|GD781140
EST:     GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCA                         ATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTT
genomic: GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCAgtaatccctc ... ttgctttcagATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTT
EST: gi|207814375|gb|GD786898.1|GD786898
EST:     GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCA                         ATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGT
genomic: GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCAgtaatccctc ... ttgctttcagATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGT
EST: gi|298186464|gb|HO037097.1|HO037097
EST:     GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCA                         ATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGT
genomic: GGTAACGGCGTTTCCTCTCTCCGTGACGACAATCTCGAAACTTATTGGCAgtaatccctc ... ttgctttcagATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttattctcctttgctcgcattctcagtcactctttcggtgtttgctttcagATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGTTAGACTTCAA
                                            tttgctttc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttctcttctggaaaatcaaagatttgaaaatttatctaaaatcaattatttattctcctttgctcgcattctcagtcactctttcggtgtttgctttcagATCCGACGGAGGGCAACCCCATTTAGTTAACATTCAGTTTCAGAAGAAAGTTAGACTTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- -tcttctg
- - - - - gaaaatc