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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgattttgttttggactttgtataccagttttttgtttacccctttcacattgtttgtaagcattttctgtgtaaccaaataatatactttttgttcttctacagCAAGCAACACGTGTTGAGCGTGTTATTGGCTTTCTTCTTGCAATATGGGGTATATTGTTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGG

Basic information

species Glycine max
transcript GLYMA20G35310.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G35310.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G172410_T01 (Zea mays), 3'ss of exon 5
------------------gtatgttgat--tttgttttggactttgtatacca---gttttttgtttacccctttcacat---tgtttgtaagcattttctgtgtaaccaaa------taatatact-ttttgtt--cttctacagCAAGCAACACGTGTTGAGCGTGTTATTGGCTTTCTTCTTGCAATATGGGGTATATTGTTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGG
                  |  |  |||   ||| | |  | |||  ||    |   ||||||      |   ||||  ||   | | | |||    |||   | |||| |        ||||||    ||||| |  ||   |||||||   ||||||||||||||||| ||||| ||  ||||||| || ||||||||||| || || |||||| |  ||||| | ||||| ||||||||||| 
gtaagtagggactagggggagtactgacagtttctgtaaggcttaataactgatatgtttttccccagctattttcctatccgtttctttaaattcttttcctttaacaatcattttctaatatgtcgttttgcttgctcgaacagCAAAAGACACGTGTTGAGCGTGTCATTGGGTTCTTTCTTGCTATCTGGGGTATATTATTCTATTCTCGATTATTAAGTGCAATGACAGAACAATTTAGA

upper sequence: GLYMA20G35310.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv05s0020g04630.t01 (Vitis vinifera), 3'ss of exon 6
gtatgttgattttgttttggactttgtataccagttttttgtttacccctttcacattgtttgtaagc-attttctgtgtaaccaaataatat-actttttgttcttctacagCAAGCAACACGTGTTGAGCGTGTTATTGGCTTTCTTCTTGCAATATGGGGTATATTGTTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGG
                                                     | | |  | || |    ||| |||| |      | ||||| |  || |||    || ||||||  ||||| | |||  ||||||||||||||| ||||||| |||||||| |||||||||||||| || ||  | ||||| ||||| |||||||| || 
-------------nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngctaaagtaatagtgaattgtttactgttttgattgaaaatattatattgtgtggaactgcagCAAAGAACACATATTGGACGTGTTATTGGCTTTGTTCTTGCTATATGGGGCATATTGTTTTACTCCCGCCTATTGAGTACAATGACAGAACAATTCAGA
















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|21601098|gb|BQ611429.1|BQ611429
EST:     GTTTCTGGGAAGCCTGGGCATGTCTTTGTTCATCGTCTACTCACTTAAAA                         CAAGCAACACGTGTTGAGCGTGTTATTGGCTTTCTTCTTGCAATATGGGGT
genomic: GTTTCTGGGAAGCCTGGGCATGTCTTTGTTCATCGTCTACTCACTTAAAAgtatgttgat ... tcttctacagCAAGCAACACGTGTTGAGCGTGTTATTGGCTTTCTTCTTGCAATATGGGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttgtaagcattttctgtgtaaccaaataatatactttttgttcttctacagCAAGCAACACGTGTTGAGCGTGTTATTGGCTTTCTTCTTGCAATATGGGGTATATTGTTTTACTCTCGACTTCTAAGTACGATGACTGAACAATTTAGG
                   gtgtaac  putative branch site (score: 3)
                                   tactttttgttcttct  putative PPT
                           aaataatatacttttt  TA-rich tract