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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgatacgtgcacagtttctaatttcgtaccgctagttttgtaaattgttaataaacttgcatatgagtaatggttgttctttttaatatatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGACTCTGCTTCAATTGTTATACTTGAAGAAACCAGCCGGTGCCTCAAG

Basic information

species Glycine max
transcript GLYMA02G16010.2
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|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|31467102|gb|CD409130.1|CD409130
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|37995085|gb|CF806674.1|CF806674
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|254346696|gb|GR856418.1|GR856418
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|192314162|gb|FK011534.1|FK011534
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAGGTCGGGCTCTCAAGCAGAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|214007958|gb|DB987846.1|DB987846
EST:     TTACCATGAGGACATCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|192311299|gb|FK003770.1|FK003770
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|213593103|gb|DB975350.1|DB975350
EST:     TAGCATGAGGACAAAC-ACTAGGAAGATACGAAAGAGTGAATTGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TACCATGAGGAC-ACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|7029104|gb|AW458878.1|AW458878
EST:     TACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|7925628|gb|AW831654.1|AW831654
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|14258668|gb|BG881576.1|BG881576
EST:     TTACCATGAGGACACCTACTANGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAACAAGGGTT
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTT
EST: gi|254344596|gb|GR855467.1|GR855467
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|12773202|gb|BG238129.1|BG238129
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|10238450|gb|BE807338.1|BE807338
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|16997020|gb|BM086392.1|BM086392
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|193526955|gb|FK483305.1|FK483305
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCA
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCA
EST: gi|6134950|gb|AW133343.1|AW133343
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCANGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|22540559|gb|BU090402.1|BU090402
EST:     TTACCATGAGGACACCTACTACGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTCAGTCGGGCTCTCAAGCATAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|254323696|gb|GR836035.1|GR836035
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|21995150|gb|BQ786678.1|BQ786678
EST:     TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAG                         GGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
genomic: TTACCATGAGGACACCTACTAGGAAGATACGAAAGAGTGAATCGTCTGAGgtaagtcaat ... tatataacagGGTAAGTCGGGCTCTCAAGCAAAAGCTGCAGCAGGGGTTTAACAATATGAC
EST: gi|31459683|gb|CD401711.1|CD401711
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
- - - - -tgcacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatat