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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtgaaaattgaagctggtttgtttcaaattgagttattacttttagattaaagcgtgtggatggatgaggacgtagttgcttctttgatggcagGTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTGGCGAATCCGAATGATGGGAAGGTGCTATCGATGTATGCAGATTTGATAT

Basic information

species Glycine max
transcript GLYMA17G12240.2
intron # 1
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|298188677|gb|HO035370.1|HO035370
EST:     ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAG                         GTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGAT
genomic: ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAGgtacgtgaaa ... ttgatggcagGTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGAT
EST: gi|23731319|gb|BU763778.1|BU763778
EST:     ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAG                         GTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTG
genomic: ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAGgtacgtgaaa ... ttgatggcagGTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTG
EST: gi|19453333|gb|BM954743.1|BM954743
EST:     ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAG                         GTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTG
genomic: ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAGgtacgtgaaa ... ttgatggcagGTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTG
EST: gi|298197402|gb|HO044881.1|HO044881
EST:     ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAG                         GTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCT
genomic: ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAGgtacgtgaaa ... ttgatggcagGTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCT
EST: gi|213589748|gb|DB973279.1|DB973279
EST:     ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAG                         GTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCG
genomic: ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAGgtacgtgaaa ... ttgatggcagGTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCG
EST: gi|298171260|gb|HO016292.1|HO016292
EST:     ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAG                         GTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTG
genomic: ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAGgtacgtgaaa ... ttgatggcagGTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTG
EST: gi|208122724|gb|GD922730.1|GD922730
EST:     ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAG                         GTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTG
genomic: ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAGgtacgtgaaa ... ttgatggcagGTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTG
EST: gi|24136859|gb|BU927369.1|BU927369
EST:     ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAG                         GTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTG
genomic: ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAGgtacgtgaaa ... ttgatggcagGTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTG
EST: gi|213590420|gb|DB971890.1|DB971890
EST:     ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAG                         GTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTG
genomic: ATCCAGGGAACCCTCTGTTTCTTGGCAACTACGCGAGGTACTTGAAAGAGgtacgtgaaa ... ttgatggcagGTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttagattaaagcgtgtggatggatgaggacgtagttgcttctttgatggcagGTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTGGCGAATCCGAATGATGGGAAGGTGCTATCGATGTATGCAGATTTGATAT
                                           ctttgat  putative branch site (score: 5)
                                     ttgcttcttt  CT-rich tract
     agattaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgtgaaaattgaagctggtttgtttcaaattgagttattacttttagattaaagcgtgtggatggatgaggacgtagttgcttctttgatggcagGTTCGAGGGGACTATGTGAAAGCGGAGGAGTACTGTTCTAGAGCGATATTGGCGAATCCGAATGATGGGAAGGTGCTATCGATGTATGCAGATTTGATAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT