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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagttttttctagtacaagttgcagagtttcaactcctcttggataacaaattggtgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACTGCCAGTGGAAGAAGTTCAGTCACTGGCTTCTGTTTCTGCTTCTGATGAT

Basic information

species Glycine max
transcript GLYMA12G06920.1
intron # 9
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|23064105|gb|BU578878.1|BU578878
EST:     GCAGGACGTGCTAAAAGATCAGATTTGCAGCTAGCAAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|11687967|gb|BF595643.1|BF595643
EST:     GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|13790720|gb|BG653311.1|BG653311
EST:     GGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|11688332|gb|BF596008.1|BF596008
EST:     GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|31469715|gb|CD411743.1|CD411743
EST:     GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|23063997|gb|BU578770.1|BU578770
EST:     GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|7926340|gb|AW832366.1|AW832366
EST:     GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|22930126|gb|BU547265.1|BU547265
EST:     GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|208285298|gb|GE082962.1|GE082962
EST:     GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|31306673|gb|CD391876.1|CD391876
EST:     GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCCAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|120531321|gb|EH259454.1|EH259454
EST:     AAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGGAAAAGGTAAGCAAGGCACT
genomic: AAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|20498706|gb|BQ273636.1|BQ273636
EST:     GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|10844370|gb|BF067669.1|BF067669
EST:     GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
EST: gi|120493132|gb|EH221299.1|EH221299
EST:     GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAG                         GTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT
genomic: GCAGGACGTGCTAAAAGATCAGATTCGCAGCTAGCAAGGAATGGTGAAAGgtcagttttt ... tgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtacaagttgcagagtttcaactcctcttggataacaaattggtgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACTGCCAGTGGAAGAAGTTCAGTCACTGGCTTCTGTTTCTGCTTCTGATGAT
                               ggataac  putative branch site (score: 3)
                                 ataacaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagttttttctagtacaagttgcagagtttcaactcctcttggataacaaattggtgatctacagGTTTAAGCAGTTAAAGGAAGAGGAAAAGAAGAAAAAGGTAAGCAAGGCACTGCCAGTGGAAGAAGTTCAGTCACTGGCTTCTGTTTCTGCTTCTGATGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT