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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctatattatatcattgtttcaaaggtaaagaaatgcacctttatatgagcattgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATTCCCAAAA

Basic information

species Glycine max
transcript GLYMA18G52160.1
intron # 8
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|207761223|gb|GD733328.1|GD733328
EST:     CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTT
genomic: CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTT
EST: gi|207801091|gb|GD774136.1|GD774136
EST:     CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTTTCT
genomic: CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCT
EST: gi|193658763|gb|FK600796.1|FK600796
EST:     AAACCACCATT                         GAATGAAGAAGAAGGTCATGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
genomic: AAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
EST: gi|208306353|gb|GE104432.1|GE104432
EST:     ATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
genomic: ATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
EST: gi|208259278|gb|GE053820.1|GE053820
EST:     TTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
genomic: TTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
EST: gi|208098951|gb|GD892726.1|GD892726
EST:     CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAA
genomic: CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAA
EST: gi|208178308|gb|GD978261.1|GD978261
EST:     CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
genomic: CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
EST: gi|208194187|gb|GD993868.1|GD993868
EST:     CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTT-CTCAGCTTT
genomic: CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTT
EST: gi|19053108|gb|BM731775.1|BM731775
EST:     CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
genomic: CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
EST: gi|193667121|gb|FK608029.1|FK608029
EST:     CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAANGAAGAAGGAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
genomic: CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
EST: gi|208238132|gb|GE040452.1|GE040452
EST:     CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTT-CTCAGCTTT-GAATCTATCTAGATT
genomic: CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
EST: gi|207845857|gb|GD819878.1|GD819878
EST:     TCAACAGTTGTATTGATTGANCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
genomic: TCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
EST: gi|193710603|gb|FK646857.1|FK646857
EST:     CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTT-CTCAGCTTT-GA-TCTATCTAGATT
genomic: CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
EST: gi|207685175|gb|GD669067.1|GD669067
EST:     CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCT
genomic: CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCT
EST: gi|193411238|gb|FK377715.1|FK377715
EST:     ATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAAACCACCTATT                         GAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGAT
genomic: ATCAACAGTTGTATTGATTGATCACTTGGGCTTCATC-AAACCACC-ATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGAT
EST: gi|6070794|gb|AW100181.1|AW100181
EST:     CATCAACAGTGTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
genomic: CATCAACAGT-TGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
EST: gi|208114454|gb|GD908523.1|GD908523
EST:     CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTT
genomic: CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTT
EST: gi|207797018|gb|GD770326.1|GD770326
EST:     CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATT                         GAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT
genomic: CCATCAACAGTTGTATTGATTGATCACTTGGGCTTCATCAAACCACCATTgtaagctata ... tgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatcattgtttcaaaggtaaagaaatgcacctttatatgagcattgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATTCCCAAAA
                  taaagaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagctatattatatcattgtttcaaaggtaaagaaatgcacctttatatgagcattgtattgcagGAATGAAGAAGAAGGTCTTGTCTTTTCTCAGCTTTTGAATCTATCTAGATTCCCAAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT