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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatatcgtgtttagtttatagtatttttcgcactaaaatgttagctattcaagaattgaatgtcagaataagcattttaacattttgtcctcagATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACCGCGTGGAAGAACTCCTCCAAG

Basic information

species Glycine max
transcript GLYMA06G07380.1
intron # 11
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|10234657|gb|BE803545.1|BE803545
EST:     CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAG                         ATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCA
genomic: CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAGgtaaatatcg ... ttgtcctcagATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCA
EST: gi|16996005|gb|BM085377.1|BM085377
EST:     CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAG                         ATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAGgtaaatatcg ... ttgtcctcagATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|192321089|gb|FK013549.1|FK013549
EST:     CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAG                         ATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAGgtaaatatcg ... ttgtcctcagATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|7691963|gb|AW760080.1|AW760080
EST:     CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAG                         ATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAGgtaaatatcg ... ttgtcctcagATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|15815238|gb|BI787513.1|BI787513
EST:     TGACCGGGACAG                         ATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: TGACCGGGACAGgtaaatatcg ... ttgtcctcagATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|192298259|gb|FG991721.1|FG991721
EST:     CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAG                         ATATTCTAGTTACAGAAAGTTT-CCCCTAGGCGTTTCAG-AGCCCACCACC
genomic: CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAGgtaaatatcg ... ttgtcctcagATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|208239414|gb|GE041286.1|GE041286
EST:     CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAG                         ATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAGgtaaatatcg ... ttgtcctcagATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|10842927|gb|BF066286.1|BF066286
EST:     CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAG                         ATATTCTAGTTACAGA
genomic: CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAGgtaaatatcg ... ttgtcctcagATATTCTAGTTACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttagctattcaagaattgaatgtcagaataagcattttaacattttgtcctcagATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACCGCGTGGAAGAACTCCTCCAAG
                                   ttttaac  putative branch site (score: 2)
                                           ttttgtcctc  CT-rich tract
                                  attttaacattttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatatcgtgtttagtttatagtatttttcgcactaaaatgttagctattcaagaattgaatgtcagaataagcattttaacattttgtcctcagATATTCTAGTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACCGCGTGGAAGAACTCCTCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC