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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcatgatgcataaattatcaagacatttgaatttcttgttggaaaacatattactatttttacttattgatgtaatatattcttctgtattttcagGAGGCCAACAAGCGCAACAACAACTGGTTACCTCCCCCATGGGCAATAGTTGCTTTGGTTATCCTGGGATTTAATGAATTTATGACACTTCTAAG

Basic information

species Glycine max
transcript GLYMA07G01230.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G01230.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 3'ss of exon 20
gcatgatgcataaattatcaag--acatttgaatttcttgttgg--aaaacatattactattttta----cttattgatgtaatatattcttctgtattttcagGAGGCCAACAAGCGCAACAACAACTGGTTACCTCCCCCATGGGCAATAGTTGCTTTGGTTATCCTGGGATTTAATGAATTTATGACACTTCTAAG
     ||   |   ||   ||     ||   ||| | |   |    |   |  |||||  |   |     || |||| | | |  |  ||||    ||| |||||| ||||||||||| || |||||||||||||| || ||||||||||| |||||| ||||  |||||||||| |||||||||||||||||||||||
---caatattttctttgagaaacagtatcaaaatatttcactaaccatgccccattaccgtcaatggtatctaattgttttcacttcctctttca-attatcagGAAGCCAACAAGCGTAATAACAACTGGTTACCACCTCCATGGGCAATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAG
















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|18692692|gb|BM521540.1|BM521540
EST:     AATTCAAGACAGAGACAGAGTACAGTGTCTCTCAGGCCATTTCTGCACAG                         GAGGCCAACAAGCGCAACAACAACTGGTTACCTCCCCCATGGGCAATAGTT
genomic: AATTCAAGACAGAGACAGAGTACAGTGTCTCTCAGGCCATTTCTGCACAGgcatgatgca ... gtattttcagGAGGCCAACAAGCGCAACAACAACTGGTTACCTCCCCCATGGGCAATAGTT
EST: gi|192301893|gb|FG995511.1|FG995511
EST:     AATTCAAGACAGAGACAGAGTACAGTGTCTCTCAGGCCATTTCTGCACAG                         GAGGCCAACAAGCGCAACAACAACTGGTTACCTCCCCCATGGGCAATAGTT
genomic: AATTCAAGACAGAGACAGAGTACAGTGTCTCTCAGGCCATTTCTGCACAGgcatgatgca ... gtattttcagGAGGCCAACAAGCGCAACAACAACTGGTTACCTCCCCCATGGGCAATAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaacatattactatttttacttattgatgtaatatattcttctgtattttcagGAGGCCAACAAGCGCAACAACAACTGGTTACCTCCCCCATGGGCAATAGTTGCTTTGGTTATCCTGGGATTTAATGAATTTATGACACTTCTAAG
                       tattgat  putative branch site (score: 3)
                                      ttcttctgtattttc  putative PPT
      atattactatttttac  TA-rich tract