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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattgtatctgaatttcttccgctgagaaggaatttgacaaataatattgcttatatattgtattagtaatttgattcacctaatgttctttttaatttcagGTCAAAACGTCAATCAGAACTTTTCCTTCTTCAGCTGAAATAGTACCTGAACCGCTGGGTGTCGTGTTAGTCATCTCTGCATGGAACTATCCAATCT

Basic information

species Glycine max
transcript GLYMA04G42740.1
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|192308517|gb|FK002413.1|FK002413
EST:     CATGTGAAGTCATACTGAAGGAATTGAAACATTGGATGACGCCAGAAAAG                         GTCAAAACGTCAATCAGAACTTTTCCTTCTTCAGCTGAAATAGTACCTGAA
genomic: CATGTGAAGTCATACTGAAGGAATTGAAACATTGGATGACGCCAGAAAAGgtacattgta ... ttaatttcagGTCAAAACGTCAATCAGAACTTTTCCTTCTTCAGCTGAAATAGTACCTGAA
EST: gi|213595441|gb|DB966537.1|DB966537
EST:     CATGTGAAGTCATACTGAAGGAATTGAAACATTGGATGACGCCAGAAAAG                         GTCAAAACGTCAATCAGAACTTTTCCTTCTTCAGCTGAAATAGTACCTGAA
genomic: CATGTGAAGTCATACTGAAGGAATTGAAACATTGGATGACGCCAGAAAAGgtacattgta ... ttaatttcagGTCAAAACGTCAATCAGAACTTTTCCTTCTTCAGCTGAAATAGTACCTGAA
EST: gi|213613770|gb|DB961267.1|DB961267
EST:     CATGTGAAGTCATACTGAAGGAATTGAAACATTGGATGACGCCAGAAAAG                         GTCAAAACGTCAATCAGAACTTTTCCTTCTTCAGCTGAAATAGTACCTGAA
genomic: CATGTGAAGTCATACTGAAGGAATTGAAACATTGGATGACGCCAGAAAAGgtacattgta ... ttaatttcagGTCAAAACGTCAATCAGAACTTTTCCTTCTTCAGCTGAAATAGTACCTGAA
EST: gi|192308516|gb|FK002412.1|FK002412
EST:     CATGTGAAGTCATACTGAAGGAATTGAAACATTGGATGACGCCAGAAAAG                         GTCAAAACGTCAATCAGAACTTTTCCTTCTTCAGCTGAAATAGTACCTGAA
genomic: CATGTGAAGTCATACTGAAGGAATTGAAACATTGGATGACGCCAGAAAAGgtacattgta ... ttaatttcagGTCAAAACGTCAATCAGAACTTTTCCTTCTTCAGCTGAAATAGTACCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcttatatattgtattagtaatttgattcacctaatgttctttttaatttcagGTCAAAACGTCAATCAGAACTTTTCCTTCTTCAGCTGAAATAGTACCTGAACCGCTGGGTGTCGTGTTAGTCATCTCTGCATGGAACTATCCAATCT
                                           ttttaat  putative branch site (score: 3)
                                       ttctttttaatttc  CT-rich tract
     tatatattgtattagt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacattgtatctgaatttcttccgctgagaaggaatttgacaaataatattgcttatatattgtattagtaatttgattcacctaatgttctttttaatttcagGTCAAAACGTCAATCAGAACTTTTCCTTCTTCAGCTGAAATAGTACCTGAACCGCTGGGTGTCGTGTTAGTCATCTCTGCATGGAACTATCCAATCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA