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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttctcataagaattgactttattttgttttaactatctgagaaacttttcattcttttattttttcaaccataaattctaaccctcgtgtaatgcattttcctagtccaaattagtaagaagtaagtttttaacatggatcactgctttgttgtagGGTGAAACTGTACCTTTCAAGCCTTATACCCACCGTTACCATGTTCCTTATAAAGCATCTCAAAGTACTTCACCCTTCTGGTATTCTATCAAGAGAGCTT

Basic information

species Glycine max
transcript GLYMA12G01000.1
intron # 4
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|208319303|gb|GE115914.1|GE115914
EST:     TGAAATTGATTTTGCTCCAGAAATT                         GGTGAAACTGTACCTTTCAAGCCTTATACCCACCGTTACCATGTTCCTTAT
genomic: TGAAATTGATTTTGCTCCAGAAATTgtaagcttct ... tttgttgtagGGTGAAACTGTACCTTTCAAGCCTTATACCCACCGTTACCATGTTCCTTAT
EST: gi|193347091|gb|FK310961.1|FK310961
EST:     TTGATTTTTGCTCCAGAAATT                         GGTGAAACTGTACCTTTCAAGCCTTATACCCACCGTTACCATGTTCCTTAT
genomic: TTGA-TTTTGCTCCAGAAATTgtaagcttct ... tttgttgtagGGTGAAACTGTACCTTTCAAGCCTTATACCCACCGTTACCATGTTCCTTAT
EST: gi|193411449|gb|FK378542.1|FK378542
EST:     TTGATTTTGCTCCAGAAATT                         GGTGAAACTGTACCTTTCAAGCCTTATACCCACCGTTACCATGTTCCTTAT
genomic: TTGATTTTGCTCCAGAAATTgtaagcttct ... tttgttgtagGGTGAAACTGTACCTTTCAAGCCTTATACCCACCGTTACCATGTTCCTTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagtccaaattagtaagaagtaagtttttaacatggatcactgctttgttgtagGGTGAAACTGTACCTTTCAAGCCTTATACCCACCGTTACCATGTTCCTTATAAAGCATCTCAAAGTACTTCACCCTTCTGGTATTCTATCAAGAGAGCTT
                          ttttaac  putative branch site (score: 2)
                                         ctgcttt  putative PPT
                  aagtaagtttttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcttctcataagaattgactttattttgttttaactatctgagaaacttttcattcttttattttttcaaccataaattctaaccctcgtgtaatgcattttcctagtccaaattagtaagaagtaagtttttaacatggatcactgctttgttgtagGGTGAAACTGTACCTTTCAAGCCTTATACCCACCGTTACCATGTTCCTTATAAAGCATCTCAAAGTACTTCACCCTTCTGGTATTCTATCAAGAGAGCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT