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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattatttgtacacctgaccatgattaatatttaattcttcaactttgtttatgcatgaccgtgactaatttttatttctttccctatgattgagaatagGCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAGTATGCTAAATTGAACCCCAATTTCGTGGGGTGTGTTGAAGGAGCATTGG

Basic information

species Glycine max
transcript GLYMA13G23790.3
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|27426313|gb|CA937833.1|CA937833
EST:     CGGTTCGCTCGCTACTTTCCTCATCCTCCACCTTCACCAGAAACCTTCAT                         GCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAG
genomic: CGGTTCGCTCGCTACTTTCCTCATCCTCCACCTTCACCAGAAACCTTCATgtaagcccaa ... ttgagaatagGCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAG
EST: gi|17401013|gb|BM177795.1|BM177795
EST:     CGGTTCGCTCGCTACTTTCCTCATCCTCCACCTTCACCAGAAACCTTCAT                         GCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAG
genomic: CGGTTCGCTCGCTACTTTCCTCATCCTCCACCTTCACCAGAAACCTTCATgtaagcccaa ... ttgagaatagGCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAG
EST: gi|17400846|gb|BM177628.1|BM177628
EST:     CGGTTCGCTCGCTACTTTCCTCATCCTCCACCTTCACCAGAAACCTTCAT                         GCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAG
genomic: CGGTTCGCTCGCTACTTTCCTCATCCTCCACCTTCACCAGAAACCTTCATgtaagcccaa ... ttgagaatagGCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAG
EST: gi|11688957|gb|BF596695.1|BF596695
EST:     CGGTTCGCTCGCTACTTTCCTCATCCTCCACCTTCACCAGAAACCTTCAT                         GCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAG
genomic: CGGTTCGCTCGCTACTTTCCTCATCCTCCACCTTCACCAGAAACCTTCATgtaagcccaa ... ttgagaatagGCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAG
EST: gi|254322348|gb|GR837762.1|GR837762
EST:     CGGTTCGCTCGCTACTTTCCTCATCCTCCACCTTCACCAGAAACCTTCAT                         GCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAG
genomic: CGGTTCGCTCGCTACTTTCCTCATCCTCCACCTTCACCAGAAACCTTCATgtaagcccaa ... ttgagaatagGCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAG
EST: gi|213589062|gb|DB973162.1|DB973162
EST:     CGGTTCGCTCGCTGCTTTCCTCATCCTCCACCTTCACCAGAAACCTTCAT                         GCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAG
genomic: CGGTTCGCTCGCTACTTTCCTCATCCTCCACCTTCACCAGAAACCTTCATgtaagcccaa ... ttgagaatagGCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttatgcatgaccgtgactaatttttatttctttccctatgattgagaatagGCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAGTATGCTAAATTGAACCCCAATTTCGTGGGGTGTGTTGAAGGAGCATTGG
                  gactaat  putative branch site (score: 2)
                   actaatttttatttct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattatttgtacacctgaccatgattaatatttaattcttcaactttgtttatgcatgaccgtgactaatttttatttctttccctatgattgagaatagGCCTCAGGTGAAAAGAAGAAAATTGTGGGGGTGTTCTACAAAGGGAATGAGTATGCTAAATTGAACCCCAATTTCGTGGGGTGTGTTGAAGGAGCATTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA