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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcattctaaaaacaaatggaagagcaaggctgttgcagtatactttttaagcaagtttttagttgatgaaaaagctttcctgatcaaaatgtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGCAATGGTTGCATATGGCTTTG

Basic information

species Glycine max
transcript GLYMA11G02540.1
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|209716107|gb|BW668646.1|BW668646
EST:     GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAG                         GTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
genomic: GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAGgttttatttc ... gtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
EST: gi|254328593|gb|GR832965.1|GR832965
EST:     GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAG                         GTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
genomic: GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAGgttttatttc ... gtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
EST: gi|254324665|gb|GR834090.1|GR834090
EST:     GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAG                         GTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
genomic: GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAGgttttatttc ... gtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
EST: gi|254341537|gb|GR852674.1|GR852674
EST:     GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAG                         GTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
genomic: GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAGgttttatttc ... gtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
EST: gi|254328592|gb|GR832964.1|GR832964
EST:     GGTTTTGGAGACATCCTTTTACCAG-AATGCTGGTGGCATTCTCACTCAG                         GTACGATTGGCTGGCAA-TAAGAGCCTTAGAAGTGGATATTTTCTTGGGGG
genomic: GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAGgttttatttc ... gtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTT-CTTGTGGG
EST: gi|6666717|gb|AW278176.1|AW278176
EST:     GGTTTTGCAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAG                         GTACGATTGGCTGGCAAATCAGAGCCTTACAAGTGGATATTTCTTGTGGGC
genomic: GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAGgttttatttc ... gtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
EST: gi|254324666|gb|GR834091.1|GR834091
EST:     GTTTTGGGAGACATCC-TTTACCAGGAATGCTGGTGGCATTCTCACTCAG                         GTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
genomic: GTTTT-GGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAGgttttatttc ... gtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
EST: gi|208298780|gb|GE091405.1|GE091405
EST:     GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAG                         GTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
genomic: GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAGgttttatttc ... gtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
EST: gi|214004354|gb|DB989359.1|DB989359
EST:     GGTTTTGGAGACATCCTTTTACCAGGAATGCTGTTGGCATTCCCACTCAG                         GTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATAATTCTTGTGGGC
genomic: GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAGgttttatttc ... gtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
EST: gi|208113746|gb|GD911651.1|GD911651
EST:     GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAG                         GTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
genomic: GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAGgttttatttc ... gtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
EST: gi|192310357|gb|FK002237.1|FK002237
EST:     GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAG                         GTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC
genomic: GGTTTTGGAGACATCCTTTTACCAGGAATGCTGGTGGCATTCTCACTCAGgttttatttc ... gtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaagcaagtttttagttgatgaaaaagctttcctgatcaaaatgtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGCAATGGTTGCATATGGCTTTG
                                tcctgat  putative branch site (score: 3)
                                            tgttttt  putative PPT
                                     atcaaaatgttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcattctaaaaacaaatggaagagcaaggctgttgcagtatactttttaagcaagtttttagttgatgaaaaagctttcctgatcaaaatgtttttgcagGTACGATTGGCTGGCAAATAAGAGCCTTAGAAGTGGATATTTCTTGTGGGCAATGGTTGCATATGGCTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - -aaacaaa
- - - - - - - - - - - - - - -ctgttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttgatg