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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aactattcagcaatgtttaacataaccttatatcgtttattcttccattcacattaaggtcctataatgatgatttggttcatgactactttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGTGAGCAAAGTATGCCATATGGAACCCAAAATGCTCACTCTCAAGGCTTCT

Basic information

species Glycine max
transcript GLYMA19G04320.1
intron # 6
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|192308196|gb|FK002736.1|FK002736
EST:     GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
EST: gi|207776290|gb|GD749611.1|GD749611
EST:     AATAAGGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: AATAAGGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
EST: gi|208324765|gb|GE125773.1|GE125773
EST:     CATATGTTGGTTTGGTAAGTCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: CATATGTTGG--TGG-AAG-CAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
EST: gi|7589900|gb|AW705674.1|AW705674
EST:     AGAATAAGGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: AGAATAAGGAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
EST: gi|5677144|gb|AI938274.1|AI938274
EST:     GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
EST: gi|208148465|gb|GD951131.1|GD951131
EST:     GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
EST: gi|208336791|gb|GE136035.1|GE136035
EST:     CATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: CATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
EST: gi|193508339|gb|FK466182.1|FK466182
EST:     AGCATATGTTGGTGGAAGCAAACAGANCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: AGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
EST: gi|193665950|gb|FK611337.1|FK611337
EST:     GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
EST: gi|208176220|gb|GD974339.1|GD974339
EST:     CATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: CATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
EST: gi|208117357|gb|GD919055.1|GD919055
EST:     GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
EST: gi|193719958|gb|FK650454.1|FK650454
EST:     GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
EST: gi|18733553|gb|BM527677.1|BM527677
EST:     GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACNATGGGAAGCTGG
genomic: GAGCATATGTTGGTGGAAGCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAAC-ATGGGAAGCTGG
EST: gi|208068232|gb|GD866586.1|GD866586
EST:     GCAAACAGATCTTTGACCATGAAG                         CTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT
genomic: GCAAACAGATCTTTGACCATGAAGgtaacaaaca ... ttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattcacattaaggtcctataatgatgatttggttcatgactactttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGTGAGCAAAGTATGCCATATGGAACCCAAAATGCTCACTCTCAAGGCTTCT
                                        ctacttt  CT-rich tract
                 tataatgatgattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aactattcagcaatgtttaacataaccttatatcgtttattcttccattcacattaaggtcctataatgatgatttggttcatgactactttgttggcagCTGGAAGAAATCAATTCAAGAAACCAGTATAGGCAAACATGGGAAGCTGGTGAGCAAAGTATGCCATATGGAACCCAAAATGCTCACTCTCAAGGCTTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- ctattca
- - - - - caatgtt
- - - - - - - - - aacataac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgac