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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttagtaaaagaaatggaatccatacttttttcctctttcattccctctaaatcaccctacccagcttatatctctcaataataagatataaatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGGCATTACTGTTGATACCTATCTCCAAGTGGGAAGATTTAACAGATGACAA

Basic information

species Glycine max
transcript GLYMA19G01470.1
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|15000829|gb|BI321643.1|BI321643
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|254332514|gb|GR846452.1|GR846452
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|21889698|gb|BQ742911.1|BQ742911
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|16341633|gb|BI967228.1|BI967228
EST:     GTGGATCTAGCTGCTCNNGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATNNNNCCAATTCAGGAGGG
genomic: GTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|254336836|gb|GR843015.1|GR843015
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|21889807|gb|BQ743020.1|BQ743020
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|15000650|gb|BI321464.1|BI321464
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|17519786|gb|BM188828.1|BM188828
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|105632195|gb|DW246355.1|DW246355
EST:     CATAGATGGCTCAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTG
EST: gi|17401371|gb|BM178153.1|BM178153
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TT-ATAGAGATAGAGAGAGGAGTGTGGCTAGATACA
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACA
EST: gi|37995905|gb|CF807494.1|CF807494
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|6719817|gb|AW307464.1|AW307464
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|120492176|gb|EH220343.1|EH220343
EST:     AGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: AGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|254317376|gb|GR826321.1|GR826321
EST:     CTGATCATGTGGATCTAGCTGCTC-TGAAA                         -TTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|37997030|gb|CF808619.1|CF808619
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|13479194|gb|BG508537.1|BG508537
EST:     TGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: TGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|254339407|gb|GR848124.1|GR848124
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
EST: gi|17400413|gb|BM177195.1|BM177195
EST:     CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAA                         TTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG
genomic: CATAGATGGCACAGATAGGCCTGATCATGTGGATCTAGCTGCTCTTGAAAgtatgttaaa ... aatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctaaatcaccctacccagcttatatctctcaataataagatataaatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGGCATTACTGTTGATACCTATCTCCAAGTGGGAAGATTTAACAGATGACAA
 ctctaaa  putative branch site (score: 3)
                    ttatatctctcaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttagtaaaagaaatggaatccatacttttttcctctttcattccctctaaatcaccctacccagcttatatctctcaataataagatataaatgttgcagTTTATAGAGATAGAGAGAGGAGTGTGGCTAGATACAACCAATTCAGGAGGGCATTACTGTTGATACCTATCTCCAAGTGGGAAGATTTAACAGATGACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - aaagaaa
- - - - - - - - - -ccatact
- - - - - - - - - - - - - - - - - - - - - - - - - - - -cctaccc