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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttactgtttcggaggaacaccaggggttaacttgttaactagctcctctgtaatttataataatttctttgtgttgcaatgttttgtttttaaccccagCTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCTTGCAACAAAAATGAGGAATTGGCTGCCAACTACCTTTTAGATCACATGC

Basic information

species Glycine max
transcript GLYMA20G24850.3
intron # 10
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|10254784|gb|BE822550.1|BE822550
EST:     TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGT                         CTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
genomic: TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGTgtaagtttga ... ttaaccccagCTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
EST: gi|209708506|gb|BW668116.1|BW668116
EST:     TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGT                         CTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
genomic: TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGTgtaagtttga ... ttaaccccagCTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
EST: gi|192320974|gb|FK013490.1|FK013490
EST:     TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGT                         CTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCACT
genomic: TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGTgtaagtttga ... ttaaccccagCTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
EST: gi|254324070|gb|GR840495.1|GR840495
EST:     TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGT                         CTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
genomic: TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGTgtaagtttga ... ttaaccccagCTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
EST: gi|19453172|gb|BM954582.1|BM954582
EST:     TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGT                         CTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
genomic: TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGTgtaagtttga ... ttaaccccagCTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
EST: gi|193729480|gb|FK664328.1|FK664328
EST:     GCCACAAGCAGTAACTATCACCCCCTGAGGAGCGCCAAGCAATTGAACGT                         CTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
genomic: GCCACAAGCAGTAACTGTCA-CCCCTGAGGAGCGCCAAGCAATTGAACGTgtaagtttga ... ttaaccccagCTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
EST: gi|254331167|gb|GR843286.1|GR843286
EST:     TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGT                         CTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
genomic: TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGTgtaagtttga ... ttaaccccagCTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
EST: gi|254324071|gb|GR840496.1|GR840496
EST:     TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGT                         CTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
genomic: TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGTgtaagtttga ... ttaaccccagCTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
EST: gi|254346641|gb|GR856363.1|GR856363
EST:     TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGT                         CTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT
genomic: TGCCACAAGCAGTAACTGTCACCCCTGAGGAGCGCCAAGCAATTGAACGTgtaagtttga ... ttaaccccagCTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctctgtaatttataataatttctttgtgttgcaatgttttgtttttaaccccagCTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCTTGCAACAAAAATGAGGAATTGGCTGCCAACTACCTTTTAGATCACATGC
                                           ttttaac  putative branch site (score: 2)
                                     ttttgttttt  CT-rich tract
      taatttataataattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttactgtttcggaggaacaccaggggttaacttgttaactagctcctctgtaatttataataatttctttgtgttgcaatgttttgtttttaaccccagCTTGAAGCAATGGGTTTTGATCGTGCAATCGTATTGGAGGTGTACTTCGCTTGCAACAAAAATGAGGAATTGGCTGCCAACTACCTTTTAGATCACATGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA