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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacagcaccctcctgtttttttaggaacagcagggtgaatatcttgataactagttcttgtgtaatttcattaacttttgatacttgttttctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCTTGTAACAAAAATGAGGAGCTGGCTGCCAACTACCTTTTAGATCACATGC

Basic information

species Glycine max
transcript GLYMA01G20670.1
intron # 11
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|254337504|gb|GR845181.1|GR845181
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|31560965|gb|CD486803.1|CD486803
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|254318902|gb|GR828738.1|GR828738
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|254337503|gb|GR845180.1|GR845180
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTA
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTA
EST: gi|57575208|gb|CX548183.1|CX548183
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|24135564|gb|BU926074.1|BU926074
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|23731238|gb|BU763731.1|BU763731
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|254343685|gb|GR857441.1|GR857441
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|192311570|gb|FK003523.1|FK003523
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|37997193|gb|CF808782.1|CF808782
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|213614171|gb|DB976376.1|DB976376
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|9899622|gb|BE608590.1|BE608590
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|151395622|gb|EV265499.1|EV265499
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAG-A-CGGCA-GCAATTGA-CGT                         CTCGA-GCA-TGGGATT-GATCGTGCA
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCA
EST: gi|192311571|gb|FK003524.1|FK003524
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|7146671|gb|AW508593.1|AW508593
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAA-GGCAAGCAATTGAACGT                         CTCGAAGCAATGGGGATT-GATCGTGCAACTGTATTTGAGGTGTACTTCGC
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGG-ATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGC
EST: gi|213596275|gb|DB981835.1|DB981835
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|193349337|gb|FK316495.1|FK316495
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|254343686|gb|GR857442.1|GR857442
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|193329853|gb|FK294067.1|FK294067
EST:     CCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: CCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|31305618|gb|CD390821.1|CD390821
EST:     TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGT                         CTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: TGCCGCAAGCAGTGACAGTCACCCCTGAGGAACGGCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
EST: gi|5509101|gb|AI855659.1|AI855659
EST:     GCAAGCAATTGAACGT                         CTTGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT
genomic: GCAAGCAATTGAACGTgtaagtctat ... tctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataactagttcttgtgtaatttcattaacttttgatacttgttttctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCTTGTAACAAAAATGAGGAGCTGGCTGCCAACTACCTTTTAGATCACATGC
                                      cttgttttctgcccc  CT-rich tract
                 taatttcattaacttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacagcaccctcctgtttttttaggaacagcagggtgaatatcttgataactagttcttgtgtaatttcattaacttttgatacttgttttctgccccagCTCGAAGCAATGGGATTTGATCGTGCAACTGTATTGGAGGTGTACTTCGCTTGTAACAAAAATGAGGAGCTGGCTGCCAACTACCTTTTAGATCACATGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - -caccctc
- - - - - - - - - - - - - - - - gggtgaa