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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgatacgtgcacagtttctaatttcgtaccgctagttttgtaaattgttaataaacttgcatatgagtaatggttgttctttttaatatatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGACTCTGCTTCAATTGTTATACTTGAAGAAACCAGCCGGTGCCTCAAG

Basic information

species Glycine max
transcript GLYMA02G16010.1
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|214006146|gb|DB986014.1|DB986014
EST:     CAACATGA-GAAATATTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TACCATGAGGACA-CCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|27424963|gb|CA936483.1|CA936483
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|192311298|gb|FK003769.1|FK003769
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCA
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCA
EST: gi|192314162|gb|FK011534.1|FK011534
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAGGTCGGGCTCTCAAGCAGAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|27426595|gb|CA938115.1|CA938115
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|192314161|gb|FK011533.1|FK011533
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAGGTCGGGCTCTCAAGCAGAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|14258668|gb|BG881576.1|BG881576
EST:     TTACCATGAGGACACCTACTANGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAACAAGGGTT
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTT
EST: gi|214003984|gb|DB985253.1|DB985253
EST:     ATACCATGAGGACAACTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|193526955|gb|FK483305.1|FK483305
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCA
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCA
EST: gi|16997020|gb|BM086392.1|BM086392
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|6134950|gb|AW133343.1|AW133343
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCANGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|7286200|gb|AW598687.1|AW598687
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|7286174|gb|AW598661.1|AW598661
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgttaataaacttgcatatgagtaatggttgttctttttaatatatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGACTCTGCTTCAATTGTTATACTTGAAGAAACCAGCCGGTGCCTCAAG
                                     ttttaat  putative branch site (score: 3)
 taatggttgttctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatgatacgtgcacagtttctaatttcgtaccgctagttttgtaaattgttaataaacttgcatatgagtaatggttgttctttttaatatatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGACTCTGCTTCAATTGTTATACTTGAAGAAACCAGCCGGTGCCTCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA