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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagttgcttctttctggtttgaactggaaaacatttgaagaattttgttttggaattctcttaaccattgaatatctctcttcacacctgttgctgatatttttatattatttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTATTAAGGCAAAGCCAAAAACAGCTTAATTTTCAATGGTAAAATTTTGTTA

Basic information

species Glycine max
transcript GLYMA06G19250.1
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|120496570|gb|EH224737.1|EH224737
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|208330897|gb|GE132674.1|GE132674
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|214007481|gb|DB987324.1|DB987324
EST:     AGCTCTGTCATCAGCATCCAAACACC-GCACTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: AGCTCTGTCATCTTCTTCCAAACACCTG-TCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|10253112|gb|BE820878.1|BE820878
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|11687638|gb|BF595314.1|BF595314
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|261497053|gb|GT185228.1|GT185228
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|208063771|gb|GD862863.1|GD862863
EST:     AAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: AAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|11687750|gb|BF595426.1|BF595426
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|13789795|gb|BG652386.1|BG652386
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|51337755|gb|CO981621.1|CO981621
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|7640292|gb|AW734597.1|AW734597
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|7639145|gb|AW733474.1|AW733474
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|254322816|gb|GR839837.1|GR839837
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|22523045|gb|BU081856.1|BU081856
EST:     CTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: CTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|193670611|gb|FK609065.1|FK609065
EST:     TTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: TTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|8404251|gb|BE059885.1|BE059885
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|26059361|gb|CA802275.1|CA802275
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|6725472|gb|AW309871.1|AW309871
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTA
EST: gi|208032805|gb|GD830464.1|GD830464
EST:     GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTG                         GGACTGCTATAGCTCTT
genomic: GAGCTCTGTCATCTTCTTCCAAACACCTGTCTCACCTGTGAATGCTTTTGgtaaagttgc ... ttttctacagGGACTGCTATAGCTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgaatatctctcttcacacctgttgctgatatttttatattatttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTATTAAGGCAAAGCCAAAAACAGCTTAATTTTCAATGGTAAAATTTTGTTA
                         tgctgat  putative branch site (score: 3)
 ttatttttct  putative PPT
 ttgctgatatttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagttgcttctttctggtttgaactggaaaacatttgaagaattttgttttggaattctcttaaccattgaatatctctcttcacacctgttgctgatatttttatattatttttctacagGGACTGCTATAGCTCTTGCTGGAGTTTTCCTCTATTCAAGGGTGAAGCGTATTAAGGCAAAGCCAAAAACAGCTTAATTTTCAATGGTAAAATTTTGTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG