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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtttatattctctcaaaactacaatgtttggttgctttacacttactttttgtaaacccaatactattgacattgaggtttaagaatgccaaatttaatttttagatgattgggctttctttgcagGTGATCTGGGTCAAACTTTTGATTCAAACAAGACCCTTGTTCACTATGAATCAAACCCTCACAAAGGACAAGCTGTGTTGTATGTTGGAGACCTCTCTTA

Basic information

species Glycine max
transcript GLYMA12G34960.1
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|192310987|gb|FK000378.1|FK000378
EST:     GACTCCTCCTGAAGTTCACCCTGATGCGCCTTATACATTTGGTCTCATTG                         GTGATCTGGGTCAAACTTTTGATTCAAACAAGACCCTTGTTCACTGTGAAT
genomic: GACTCCTCCTGAAGTTCACCCTGATGCGCCTTATACATTTGGTCTCATTGgcaagtttat ... ttctttgcagGTGATCTGGGTCAAACTTTTGATTCAAACAAGACCCTTGTTCACTATGAAT
EST: gi|18040173|gb|BM308467.1|BM308467
EST:     GACTCCTCCTGAAGTTCACCCTGATGCGCCTTATACATTTGGTCTCATTG                         GTGATCTGGGTCAAACTTTTGATTCAAACAAGACCCTTGTTCACTATGAAT
genomic: GACTCCTCCTGAAGTTCACCCTGATGCGCCTTATACATTTGGTCTCATTGgcaagtttat ... ttctttgcagGTGATCTGGGTCAAACTTTTGATTCAAACAAGACCCTTGTTCACTATGAAT
EST: gi|16997191|gb|BM086563.1|BM086563
EST:     GACTCCTCCTGAAGTTCACCCTGATGCGCCTTATACATTTGGTCTCATTG                         GTGATCTGGGTCAAACTTTTGATTCAAACAAGACCCTTGTTCACTATGAAT
genomic: GACTCCTCCTGAAGTTCACCCTGATGCGCCTTATACATTTGGTCTCATTGgcaagtttat ... ttctttgcagGTGATCTGGGTCAAACTTTTGATTCAAACAAGACCCTTGTTCACTATGAAT
EST: gi|18735287|gb|BM528677.1|BM528677
EST:     GACTCCTCCTGAAGTTCACCCTGATGCGCCTTATACATTTGGTCTCATTG                         GTGATCTGGGTCAAACTTNTGATTCAAA-AAGAACCTTG
genomic: GACTCCTCCTGAAGTTCACCCTGATGCGCCTTATACATTTGGTCTCATTGgcaagtttat ... ttctttgcagGTGATCTGGGTCAAACTTTTGATTCAAACAAGACCCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgaggtttaagaatgccaaatttaatttttagatgattgggctttctttgcagGTGATCTGGGTCAAACTTTTGATTCAAACAAGACCCTTGTTCACTATGAATCAAACCCTCACAAAGGACAAGCTGTGTTGTATGTTGGAGACCTCTCTTA
                     atttaat  putative branch site (score: 4)
                                           ctttctttgc  putative PPT
                   aaatttaatttttaga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaagtttatattctctcaaaactacaatgtttggttgctttacacttactttttgtaaacccaatactattgacattgaggtttaagaatgccaaatttaatttttagatgattgggctttctttgcagGTGATCTGGGTCAAACTTTTGATTCAAACAAGACCCTTGTTCACTATGAATCAAACCCTCACAAAGGACAAGCTGTGTTGTATGTTGGAGACCTCTCTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA