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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTATTCACAGCCAGACCTGCAGCTACACTGGAAATGTTCCCTTCATGGCCAATGAGATTCCAGCAAACCCCAAGAgtactagtctcctacttgtccatctttgaccatttatttaaacatgcttttaattgcttatgcttacaagttcaagaaatctcaatattttatttttttt...

Basic information

species Glycine max
transcript GLYMA12G30990.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G30990.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os05g37170.8 (Oryza sativa), 5'ss of exon 2
---CTTTATTCACAGCCAGACCTGCAGCTACACTGGAAATGTTCCCTTCATGGCCAATGAGATTCCAGCAAACCCCA-AGAgtactagtctcctacttgtccatctttgaccatttatttaaacatgcttttaattgctt--------atgcttacaagttcaagaaat--ctcaatattttatttttttt---------------------------
     |   |  |||| || ||  |    ||||||||||| ||||||||||||||||||||    |  ||    ||| | |||   ||         | |  |||  | ||  | |  |  |   |  |  | | |||          | |  | |  | | ||  |    |||| | | |  |  | ||                            
CAGGATATCTTGCAGCTAGGCCCCC---CACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGTgtaagcactgcttctcttgatcagtaacagtctcctacagtttcttactgactgcaacagaaaaaaagtgttcttgcttaattagctgctcactgtctgctcctcttgtttctttgattaattgctttatagcag

upper sequence: GLYMA12G30990.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os05g37170.3 (Oryza sativa), 5'ss of exon 3
------CTTTATTCACAGCCAGACCTGCAGCTACACTGGAAATGTTCCCTTCATGGCCAATGAGATTCCAGCAAACCCCA-AGAgtactagtctcctacttgtccatctttgaccatttatttaaacatgcttttaattgctt--------atgcttacaagttcaagaaat--ctcaatattttatttttttt---------------------------
        |   |  |||| || ||  |    ||||||||||| ||||||||||||||||||||    |  ||    ||| | |||   ||         | |  |||  | ||  | |  |  |   |  |  | | |||          | |  | |  | | ||  |    |||| | | |  |  | ||                            
CAGCAGGATATCTTGCAGCTAGGCCCCC---CACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGTgtaagcactgcttctcttgatcagtaacagtctcctacagtttcttactgactgcaacagaaaaaaagtgttcttgcttaattagctgctcactgtctgctcctcttgtttctttgattaattgctttatagcag

upper sequence: GLYMA12G30990.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os05g37170.6 (Oryza sativa), 5'ss of exon 1
-----------------------CTTTATTCACAGCCAGACCTGCAGCTACACTGGAAATGTTCCCTTCATGGCCAATGAGATTCCAGCAAACCCCA-AGAgtactagtctcctacttgtccatctttgaccatttatttaaacatgcttttaattgctt--------atgcttacaagttcaagaaat--ctcaatattttatttttttt------------------------
                         |   |  |||| || ||  |    ||||||||||| ||||||||||||||||||||    |  ||    ||| | |||   ||         | |  |||  | ||  | |  |  |   |  |  | | |||          | |  | |  | | ||  |    |||| | | |  |  | ||                         
CATTTGTATGTATGCAGCAGCAGGATATCTTGCAGCTAGGCCCCC---CACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGTgtaagcactgcttctcttgatcagtaacagtctcctacagtttcttactgactgcaacagaaaaaaagtgttcttgcttaattagctgctcactgtctgctcctcttgtttctttgattaattgctttatag

upper sequence: GLYMA12G30990.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0080g00360.t01 (Vitis vinifera), 5'ss of exon 4
CTTTATTCACAGCCAGACCTGCAGCTACACTGGAAATGTTCCCTTCATGGCCAATGAGATTCCAGCAAACCCCAAGAgtactagtctcc-tacttgtccatctttgaccatttatttaaacatgcttttaattgct-tatgcttacaagt-tcaagaaatctcaatattttatttttttt--
|||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||||||||| ||||||| |  ||||| |  ||| |||| | |     |||   | || |  |||   | |||   || ||  |  || || | || | ||  | | || |  |  |   
CTTTATTCACAGCCAGGCCTGCAGCTACTCTGGAAATGTTCCCTTCATGGCCAATGAGATTCCAGCAAACCCAAAGAgtagttttctccatctttgaccatttct-----ttttcattaataaccttaatactgcaacatcctctctggtctctacaactttccttctcttctactggtgct

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|209719800|gb|BW674952.1|BW674952
EST:     CACTGGAAATGTTCCCTTCATGGCCAATGAGATTCCAGCAAACCCCAAGA                         GTTGGTTCAAAGTCAGGAGGAGAAAGCACTGATTCAGGTCTCTCTA
genomic: CACTGGAAATGTTCCCTTCATGGCCAATGAGATTCCAGCAAACCCCAAGAgtactagtct ... ccatatacagGTTGGTTCAAAGTCAGGAGGAGAAAGCACTGATTCAGGTCTCTCTA