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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAGTGGGTTACTGGTTCATTCGCTGGTCATACTGCGGTTTGCTTGAAGGATGAATGGGGCAATTTATGGGTTGGTGAATCAGGGCACGAGAATGAAAAggtattaaagtgattcggtttttataatttttatcatttttcttttaacatcattgatgtaatcatctaaatgccagttgaacaggaattttgtaattgttccatggttgttgggggtggtgactggtgactgagctatgttttattttaattgattatagaagcataatatgtctttgtgca

Basic information

species Glycine max
transcript GLYMA18G17350.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G17350.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os08g32910.1 (Oryza sativa), 5'ss of exon 3
AAAAGTGGGTTACTGGTTCATTCGCTGGTCATACTGCGGTTTGCTTGAAGGATGAATGGGGCAATTTATGGGTTGGTGAATCAGGGCACGAGAATGAAAAggtattaaagtgattcggtttttataat-ttttatcatttttcttttaacatcattgatgtaatcatctaaatgccagttgaacaggaattttgtaattgttccatggttgttgggggtggtgactggtgactgagctatgttttattttaattgattatagaagcataatatgtctttgtgca
  || ||||| |||||| |||| |||||||| ||||| ||||||||||| |||||    |||| | | |||||||  ||||||||  | || ||  ||||||||      || |||   ||| ||  | |   || |||   ||    ||||  ||||  |  |||||| |  |  |  | | ||         |||  |||                                                                                  
-GAAATGGGTGACTGGTGCATTTGCTGGTCACACTGCTGTTTGCTTGAAAGATGAGAACGGCACTCTCTGGGTTGCAGAATCAGGCTATGAAAACAAAAAGgtacatttatgtttcttatttcattgtataacataattccactacctacattcttga-atcttcatcttatggatacataagcaatgcaagattaacagtt----------------------------------------------------------------------------------

upper sequence: GLYMA18G17350.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G70160.1 (Arabidopsis thaliana), 5'ss of exon 3
AAAAGTGGGTTACTGGTTCATTCGCTGGTCATACTGCGGTTTGCTTGAAGGATGAATGGGGCAATTTATGGGTTGGTGAATCAGGGCACGAGAATGAAAAggta--ttaaagtgattcggtttttataatttttatcatttttcttttaacatcattgatgtaatcatctaaatgccagttgaacaggaattttgtaattgttccatggttgttgggggtggtgactggtgactgagctatgttttattttaattgattatagaagcataatatgtctttgtgca
  || ||||| |||||  | || |||||||||||||| ||||| ||||||||||| | ||| ||| | ||||||||||||||||| || ||||| |||||||||     ||    || |   ||  |   |   |  |    | |||||  ||| ||      ||                                                                                                                        
-GAAATGGGTGACTGGGGCTTTTGCTGGTCATACTGCTGTTTGTTTGAAGGATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAGgtagacctaaacattttgaagttagtggatagaaagagagatattttactatctttttccccatag----------------------------------------------------------------------------------------------------------------------

upper sequence: GLYMA18G17350.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv01s0026g00920.t01 (Vitis vinifera), 5'ss of exon 3
AAAAGTGGGTTACTGGTTCATTCGCTGGTCATACTGCGGTTTGCTTGAAGGATGAATGGGGCAATTTATGGGTTGGTGAATCAGGGCACGAGAATGAAAAggtattaaagtgattcggtttttataatttttatcatttttcttttaacatcattgatgtaatcatcta-aatgccagttgaacaggaattttgtaattgt-tccatggttgttgggggtggtgactggtgactgagctatgttttattttaattgattatagaagcataatatgtctttgtgca
 ||| ||||| || ||| |||| ||||||||||| || ||||||||||||||||||  ||| ||| | ||||||||||| || ||||||||||| ||||||||||   ||   |   || || |  |     |  | ||  |      ||  |  |  ||| || | || |||  || |||||     |   |    |||| ||||                                                                               
-AAAATGGGTAACAGGTGCATTTGCTGGTCATACAGCAGTTTGCTTGAAGGATGAAGAGGGTAATCTTTGGGTTGGTGAGTCGGGGCACGAGAACGAAAAGgtatgctagcagtaatgtattgaagaaaagaa--aattgacaacatgcacaaaagcagta-tcgtttataatttcacttgaatttctag--tacggttgtatcca-------------------------------------------------------------------------------

upper sequence: GLYMA18G17350.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S307_69V6.1 (Physcomitrella patens), 5'ss of exon 3
AAAAGTGGGTTACTGGTTCATTCGCTGGTCATACTGCGGTTTGCTTGAAGGATGAATGGGGCAATTTATGGGTTGGTGAATCAGGGCACGAGAATGAAAAggtattaaagtgattcggtttttataatttttatcatttttcttttaacatcattgatgtaatcatctaaatgccagttgaacaggaattttgtaattgttccatggttgttgggggtggtgactggtgactgagctatgttttattttaattgattatagaagcataatatgtctttgtgca
  || |||||  | || || | | ||||||| || || |||||||||   |||||    ||||| ||||||||||||||||| || || ||||||||||||||    |    ||| |     ||  |  ||     | | |   ||    ||||  | ||    ||  |  |   | ||    | | | |||  |                                                                                        
-GAAATGGGTATCGGGGTCGTACTCTGGTCACACAGCTGTTTGCTTGCGTGATGACGATGGCAAGTTATGGGTTGGTGAATCTGGCCATGAGAATGAAAAGgtgagcagcaaatttg-----taggaaattcgcagtatctgcattggtttcatata-gtcgcaattgatctctaatttttttatgtacttttcag---------------------------------------------------------------------------------------

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|120495608|gb|EH223775.1|EH223775
EST:     CACGAGAATGAAAA                         GGGTGAAGAAATAATAGTGGTAATTCCCTGGGAAGAATGGTGGGAATTGGC
genomic: CACGAGAATGAAAAggtattaaag ... tctttgtgcaGGGTGAAGAAATAATAGTGGTAATTCCCTGGGAAGAATGGTGGGAATTGGC