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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttttcttgtagttgaagtttttgaatgaatgattttgttacgttttgtgttcacactttttaatctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGAACAAGGACTATGGTGGTGAGGGTTTAACGCTTTGTGTTTGTTAGTATTA

Basic information

species Glycine max
transcript GLYMA20G34880.2
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|22540200|gb|BU090043.1|BU090043
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
EST: gi|58025389|gb|CX712130.1|CX712130
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
EST: gi|208271647|gb|GE069647.1|GE069647
EST:     TGGATTCGGCTGCGAGATTGATGAAGAAAACTTACTAATAAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGAT
genomic: TGGATTCGGCTGCGAGATTGATGAAGAAA-CTT-CTAATAA-GCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGAT
EST: gi|58015197|gb|CX701939.1|CX701939
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
EST: gi|213617115|gb|DB963588.1|DB963588
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGG
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGG
EST: gi|120532090|gb|EH260223.1|EH260223
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
EST: gi|213608110|gb|DB970791.1|DB970791
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
EST: gi|21255669|gb|BQ452557.1|BQ452557
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTTGC-TGCTGTTCTGTTTGTGCTGCCGGAATCGTATG
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTT-GCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATG
EST: gi|209716170|gb|BW662342.1|BW662342
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTG
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTG
EST: gi|21993568|gb|BQ785096.1|BQ785096
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGGAT-CGTATGTTGATCCTGAG
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGG-ATTCGTATGTTGATCCTGAG
EST: gi|213597960|gb|DB958341.1|DB958341
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGG
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGG
EST: gi|120531973|gb|EH260106.1|EH260106
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
EST: gi|209696885|gb|BW660450.1|BW660450
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGA
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGA
EST: gi|213596242|gb|DB960174.1|DB960174
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGA
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGA
EST: gi|7639961|gb|AW734272.1|AW734272
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGGCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
EST: gi|9258898|gb|BE347045.1|BE347045
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
EST: gi|18690867|gb|BM519723.1|BM519723
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCAATTTGTGCTGCCGGATTCGTATGTTGATCCTGAG
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAG
EST: gi|192329911|gb|FK021497.1|FK021497
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAG
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAG
EST: gi|209723278|gb|BW679875.1|BW679875
EST:     CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAG                         GGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA
genomic: CTTTGGATTCGGCTGCGAGATTGATGAAGAAACTTCTAATAAGCTCGAAGgtatgttttc ... atctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttgaatgaatgattttgttacgttttgtgttcacactttttaatctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGAACAAGGACTATGGTGGTGAGGGTTTAACGCTTTGTGTTTGTTAGTATTA
                                        ttttaat  putative branch site (score: 3)
                                       tttttaatctgtata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttttcttgtagttgaagtttttgaatgaatgattttgttacgttttgtgttcacactttttaatctgtatagGGTTGCCTGGTGTTCTGTTTGTGCTGCCGGATTCGTATGTTGATCCTGAGAACAAGGACTATGGTGGTGAGGGTTTAACGCTTTGTGTTTGTTAGTATTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG