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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatttgtgctgcgcactctttttaagaaaaagaaaaatgtttacatctgcatgtgattcaaattcttaaactgattccttgtcctcttaattctatgcagCCAGATCTGGAAAAGGGTGATAAAA

Basic information

species Glycine max
transcript GLYMA15G04140.1
intron # 3
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|209707768|gb|BW683660.1|BW683660
EST:     CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAG                         CCAGATCTGGAAAAGGGTGATAAAA
genomic: CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAGgtacgatcac ... ttctatgcagCCAGATCTGGAAAAGGGTGATAAAA
EST: gi|298175906|gb|HO015311.1|HO015311
EST:     CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAG                         CCAGATCTGGAAAAGGGTGATAAAA
genomic: CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAGgtacgatcac ... ttctatgcagCCAGATCTGGAAAAGGGTGATAAAA
EST: gi|193552697|gb|FK506192.1|FK506192
EST:     CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAG                         CCAGATCTGGAAAAGGGTGA
genomic: CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAGgtacgatcac ... ttctatgcagCCAGATCTGGAAAAGGGTGA
EST: gi|37993996|gb|CF805742.1|CF805742
EST:     CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAG                         CCAGATCTGGAAAAGGGTGATAAAA
genomic: CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAGgtacgatcac ... ttctatgcagCCAGATCTGGAAAAGGGTGATAAAA
EST: gi|16349341|gb|BI974936.1|BI974936
EST:     CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAG                         CCAGATCTGGAAAAGGGTGATAAAA
genomic: CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAGgtacgatcac ... ttctatgcagCCAGATCTGGAAAAGGGTGATAAAA
EST: gi|120533678|gb|EH261811.1|EH261811
EST:     CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAG                         CCAGATCTGGAAAAGGGTGATAAAA
genomic: CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAGgtacgatcac ... ttctatgcagCCAGATCTGGAAAAGGGTGATAAAA
EST: gi|15664016|gb|BI701387.1|BI701387
EST:     CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAG                         CCAGATCTGGAAAAGGGTGATAAAA
genomic: CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAGgtacgatcac ... ttctatgcagCCAGATCTGGAAAAGGGTGATAAAA
EST: gi|213611480|gb|DB972797.1|DB972797
EST:     CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAG                         CCAGATCTGGAAAAGGGTGATAAAA
genomic: CAACATTTGAACAGTTTTATCGTTGTTACCCTGTCTCCTTCATTGAGAAGgtacgatcac ... ttctatgcagCCAGATCTGGAAAAGGGTGATAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgcatgtgattcaaattcttaaactgattccttgtcctcttaattctatgcagCCAGATCTGGAAAAGGGTGATAAAA
                                       tcttaat  putative branch site (score: 3)
          attcaaattcttaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatttgtgctgcgcactctttttaagaaaaagaaaaatgtttacatctgcatgtgattcaaattcttaaactgattccttgtcctcttaattctatgcagCCAGATCTGGAAAAGGGTGATAAAA

- tttgtgc
- - - - - -cgcactc
- - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - -tgcatgt