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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaattatgattttgagaaatattttaatgataattttttgtgtgtggttgtatatgatttaatttaacgaatcatgtctactttttctgtaacctagtttgcgttaatttaatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG

Basic information

species Glycine max
transcript GLYMA16G22060.4
intron # 4
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|193615859|gb|FK567365.1|FK567365
EST:     CGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: CGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
EST: gi|208088787|gb|GD891201.1|GD891201
EST:     GTCGGCAAAGCTGGTGGTGAAAAATAGGAAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: GTCGGCAAAGCTGGTGGTGAAAAAT-GG-AAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
EST: gi|192297534|gb|FG989540.1|FG989540
EST:     GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
EST: gi|15814123|gb|BI786398.1|BI786398
EST:     GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
EST: gi|208080846|gb|GD876656.1|GD876656
EST:     GTCGGCAAAGCTGGTGGTGAAAAAATGGAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: GTCGGCAAAGCTGGTGGTG-AAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
EST: gi|5058411|gb|AI736943.1|AI736943
EST:     GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
EST: gi|208223726|gb|GE027057.1|GE027057
EST:     GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTGTCTGATGCT                         GAAAAGGCCCCT
genomic: GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCT
EST: gi|193585396|gb|FK539075.1|FK539075
EST:     TGGTGAAAAATGGAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: TGGTGAAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
EST: gi|10843286|gb|BF066593.1|BF066593
EST:     GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
EST: gi|207692643|gb|GD674868.1|GD674868
EST:     GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTG
genomic: GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTG
EST: gi|208079717|gb|GD875401.1|GD875401
EST:     GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
EST: gi|208284395|gb|GE086371.1|GE086371
EST:     GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
EST: gi|193456025|gb|FK417073.1|FK417073
EST:     GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
EST: gi|193412782|gb|FK378671.1|FK378671
EST:     GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
EST: gi|17401598|gb|BM178380.1|BM178380
EST:     GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCT                         GAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG
genomic: GTCGGCAAAGCTGGTGGTGAAAAATGGAAATCGCTATCTGATGCTgtgagaatta ... aatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacgaatcatgtctactttttctgtaacctagtttgcgttaatttaatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG
                                      ttaatttaatgtttca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagaattatgattttgagaaatattttaatgataattttttgtgtgtggttgtatatgatttaatttaacgaatcatgtctactttttctgtaacctagtttgcgttaatttaatgtttcagGAAAAGGCCCCTTTCGTTGCTACTGCTGAGAAGAAGAAACAGGAGTATGAGAAAACTATTTCGGCTTACAATAAGCAATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA