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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctaaacaattacataaatacacagaatctatgtcatcatagttgaaatagtgatttttatcttagtaatactgatatgttgcaatgtttaaccatcatagATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACGTCAGCAGTGATAGTTGAAGAACCCAAAGAGGAAGCTAGGGTGCTGAAA

Basic information

species Glycine max
transcript GLYMA20G36400.1
intron # 5
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|192302643|gb|FG996337.1|FG996337
EST:     GAAGAAGGTTTCAATCAATGGGACAGTATGGCCAAGGTGAGCTGCAAAAG                         ATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACG
genomic: GAAGAAGGTTTCAATCAATGGGACAGTATGGCCAAGGTGAGCTGCAAAAGgtatttactc ... accatcatagATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACG
EST: gi|31470603|gb|CD412631.1|CD412631
EST:     GAAGAAGGTTTCAATCAATGGGACAGTATGGCCAAGGTGAGCTGCAAAAG                         ATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACG
genomic: GAAGAAGGTTTCAATCAATGGGACAGTATGGCCAAGGTGAGCTGCAAAAGgtatttactc ... accatcatagATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACG
EST: gi|151399393|gb|EV269264.1|EV269264
EST:     GAAGAAGGTTTCAATCAATGGGACAGTATGGCCAAG-TGAGCTGCAAAAG                         ATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCA-CG
genomic: GAAGAAGGTTTCAATCAATGGGACAGTATGGCCAAGGTGAGCTGCAAAAGgtatttactc ... accatcatagATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACG
EST: gi|151397805|gb|EV267678.1|EV267678
EST:     GAAGAAGGTTTCAATCAATGGGACAGTATGGCCAAGGTGAGCTGCAAAAG                         ATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACG
genomic: GAAGAAGGTTTCAATCAATGGGACAGTATGGCCAAGGTGAGCTGCAAAAGgtatttactc ... accatcatagATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACG
EST: gi|192326003|gb|FK016890.1|FK016890
EST:     GAAGAAGGTTTCAATCAATGGGACAGTATGGCCAAGGTGAGCTGCAAAAG                         ATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACG
genomic: GAAGAAGGTTTCAATCAATGGGACAGTATGGCCAAGGTGAGCTGCAAAAGgtatttactc ... accatcatagATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACG
EST: gi|192302644|gb|FG996338.1|FG996338
EST:     GAAGAAGGTTTCAATCAATGGGACAGTATGGCCAAGGTGAGCTGCAAAAG                         ATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACG
genomic: GAAGAAGGTTTCAATCAATGGGACAGTATGGCCAAGGTGAGCTGCAAAAGgtatttactc ... accatcatagATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatagtgatttttatcttagtaatactgatatgttgcaatgtttaaccatcatagATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACGTCAGCAGTGATAGTTGAAGAACCCAAAGAGGAAGCTAGGGTGCTGAAA
       atttttatcttagtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctaaacaattacataaatacacagaatctatgtcatcatagttgaaatagtgatttttatcttagtaatactgatatgttgcaatgtttaaccatcatagATTGCAAAAGCAATGATTGCAGCTGGTAGAGTTCTGACTGCTAGTTCAACGTCAGCAGTGATAGTTGAAGAACCCAAAGAGGAAGCTAGGGTGCTGAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
ctaaaca
- - - - - - - - atacaca
- - - - - - - - - - - - - -ctatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgca