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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgaagattgatactttctgatatttctatgtttgctgttttttctttcttacatatgtttatatcaaatctctgacaattcaatctttgttttctatagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT

Basic information

species Glycine max
transcript GLYMA12G08490.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G08490.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G471805_T01 (Zea mays), 3'ss of exon 2
---------------------------------------------------------------------ttgaagattgatactttctgatatttc-tatgtttgctgttttttctttcttacatatgttt---atatcaaatctctgacaattcaatctttgttttct---------atagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT
                                                                        |||| | | |||||     |         |   ||   | |||||| |||  | |  ||   | |   |||    |   ||   |  ||  ||| |          | ||||||| || ||||||||| | ||||| || || |||||||||||| | ||||||||||||||  | 
gtgaggagaagtggagaactggagtagcaccagatgaatctcgcttcttaaagagattttgcatttaagaaaaagaattagactttgcatcagaaggcggatcaacttcatcttcttttttagctgtagttgcgaaacttaatggtgggtgatctgaatttcttttgcctctggcctgacagGATCCAAACTCCAAGCACCTTGGGACCACGGTCTGGGATGCATCAATGGTGTTTGTCAAGTTCTTG

upper sequence: GLYMA12G08490.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G013981_T03 (Zea mays), 3'ss of exon 2
-----------------------------------------------------ttgaagattgatactt---tctgatatttctatgt----ttgctgttttttctttcttacatat---gtttatatcaaatctctgacaattcaatctttgtttt----------ctatagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT
                                                     || |  |   ||| ||     |   |||   | ||       ||   | |||| |   |  | |   |   |||   |||    |   ||   |  ||| ||||           || ||||||| || |||||||||   ||||| || || |||||||||||| | ||||||||||||||| | 
gtgacgagaactagagtagcaagatgaatcttgcctcttaaaaaaagtttcttttaagaaaaaataattgggctttggattaggaggtggatcaacttcatcttctattcaagctgtagcggccatacttaatggtgggtgatctgaattttcttttgtttctggaattacagGATCCAAACTCCAAGCACCATGGGACCACGGTCTGGGATGCATCAATGGTGTTTGTCAAGTTTTTG

upper sequence: GLYMA12G08490.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0017g01120.t01 (Vitis vinifera), 3'ss of exon 4
ttgaagattgatactttctgatatttctatgtttgctgttttttctttcttacatatgtttatatcaaatctctgacaattcaatctttgttttct----atagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT
 | |     || | |||    ||||   ||||| | | | ||   | |||  || || | | ||| |  || ||||   | | |  ||| | ||||     |||||||||||||| ||||| ||||| ||||| || |||||||||||| | || ||||| || ||||| 
-tcatagcagagaattttaagtatt---atgttggttatattaattctctagcacatctctttataacttccctgatgctgccaattttttcttcttgtggtagGATCCCAATTCGAAGCATTTAGGAACTACGGTTTGGGATGCATCAATGGTATTTGTGAAATTTCTG

upper sequence: GLYMA12G08490.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0061g00490.t01 (Vitis vinifera), 3'ss of exon 4
ttgaagattgatactttctgatatttctatgtttgctgttttttctttcttacatatgtttatatcaaatctctgacaattcaatctttgttttct----atagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT
|   ||    ||| |||  |       |||||| | | | ||   | |||  || || | | ||| |  || ||||   | | |  ||| | ||||     |||||||||||||| ||||| ||||| ||||| || |||||||||||| | || ||||| || ||||| 
tcatagcagaatattttaagg----attatgttggttatattaattctctagcacatctctttataacttccctgatgctgccaattttttcttcttgtggtagGATCCCAATTCGAAGCATTTAGGAACTACGGTTTGGGATGCATCAATGGTATTTGTGAAATTTCTG

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|213618377|gb|DB969375.1|DB969375
EST:     CATTTGAGATGCCATTGGAGGTTATGGGCCATGAGTTACAGTTTTCTCAG                         GATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTG
genomic: CATTTGAGATGCCATTGGAGGTTATGGGCCATGAGTTACAGTTTTCTCAGgtattatact ... ttttctatagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTG
EST: gi|12773344|gb|BG238271.1|BG238271
EST:     CATTTGAGATGCCATTGGAGGTTATGGGCCATGAGTTACAGTTTTCTCAG                         GATCCCAATTCCAAGCACTTANGGACTACAGTATGGGATGCATCACTTGTG
genomic: CATTTGAGATGCCATTGGAGGTTATGGGCCATGAGTTACAGTTTTCTCAGgtattatact ... ttttctatagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttacatatgtttatatcaaatctctgacaattcaatctttgttttctatagGATCCCAATTCCAAGCACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT
                                       tctttgttttctat  CT-rich tract
        atatgtttatatcaaa  TA-rich tract