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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttttggtcttgacctctcacatatttctgtaattttattttatcattgaattttgtgattgtcccatcataaatctttcaagcattatttttcaacagAGGCATGCCCCTTTTGTAGAAGGGTCCGGGAAGCTTTGACTGAACTAGATCTTTCTGTAGAG

Basic information

species Glycine max
transcript GLYMA04G43520.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G43520.2 (Glycine max), 3'ss of exon 3
lower sequence: AT4G10000.1 (Arabidopsis thaliana), 3'ss of exon 3
ttttttggtcttgacctctcacatatttctgtaattttattttatcattgaattttgtgattgtcccatcataaatctttcaagcattatttttcaacagAGGCATGCCCCTTTTGTAGAAGGGTCCGGGAAGCTTTGACTGAACTAGATCTTTCTGTAGAG
           |    | |   |      |||||    |    || | || |     | ||| | |  |  | |   |||      || ||    |||||||||||| ||||||||| | || || ||||||||  ||||||| ||||| ||||| ||||| 
----------gtatgttttgttagtgccatgtaaacaaagagcattagtggaaagc-taattttacatttgtgagagttttcttggtttttggataacagAGGCATGTCCCTTTTGTCGGAGAGTGCGGGAAGCCATGACTGAGCTAGACCTTTCAGTAGAA

upper sequence: GLYMA04G43520.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0001g06900.t01 (Vitis vinifera), 3'ss of exon 3
ttttttggtcttgacctctcacatatttctgtaattttatt--ttatcattgaattttgtgattgtcccatcataaatctt--tcaagcattatttttcaacagAGGCATGCCCCTTTTGTAGAAGGGTCCGGGAAGCTTTGACTGAACTAGATCTTTCTGTAGAG
    ||  |  | | ||||  ||   |||  ||    || |  || | |||  ||   | |||||   | |     |  |   |     |||  |  ||||||||||||||||||||||| || || || || || ||  | ||||| || |||||||||||||||
----tttctactaaactcttgcaccattcaatacagctactcattgttattacatagagggattgctacttttctgagttagatgttttattgctggtcaacagAGGCATGCCCCTTTTGCAGGAGAGTTCGAGAGGCCATAACTGAGCTTGATCTTTCTGTAGAG
















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|20812843|gb|BQ297321.1|BQ297321
EST:     CAAAGAAATCACTTCAGATCTTCCTTTTAGTTTGCAGCTTTTTGAATTTG                         AGGCATGCCCCTTTTGTAGAAGGGTCCGGGAAGCTTTGACTGAACTAGATC
genomic: CAAAGAAATCACTTCAGATCTTCCTTTTAGTTTGCAGCTTTTTGAATTTGgtacgcctct ... ttttcaacagAGGCATGCCCCTTTTGTAGAAGGGTCCGGGAAGCTTTGACTGAACTAGATC
EST: gi|10231867|gb|BE800755.1|BE800755
EST:     CAAAGAAATCACTTCAGATCTTCCTTTTAGTTTGCAGCTTTTTGAATTTG                         AGGCATGCCCCTTTTGTAGAAGGGTCCGGGAAGCTTTGACTGAACTAGATC
genomic: CAAAGAAATCACTTCAGATCTTCCTTTTAGTTTGCAGCTTTTTGAATTTGgtacgcctct ... ttttcaacagAGGCATGCCCCTTTTGTAGAAGGGTCCGGGAAGCTTTGACTGAACTAGATC
EST: gi|298192682|gb|HO033116.1|HO033116
EST:     CAAAGAAATCACTTCAGATCTTCCTTTTAGTTTGCAGCTTTTTGAATTTG                         AGGCATGCCCCTTTTGTAGAAGGGTCCGGGAAGCTTTGACTGAACTAGATC
genomic: CAAAGAAATCACTTCAGATCTTCCTTTTAGTTTGCAGCTTTTTGAATTTGgtacgcctct ... ttttcaacagAGGCATGCCCCTTTTGTAGAAGGGTCCGGGAAGCTTTGACTGAACTAGATC
EST: gi|9903056|gb|BE612024.1|BE612024
EST:     CAAAGAAATCACTTCAGATCTTCCTTTTAGTTTGCAGCTTTTTGAATTTG                         AGGCATGCCCCTTTTGTAGAAGGGTCCGGGAAGCTTTGACTGAACTAGATC
genomic: CAAAGAAATCACTTCAGATCTTCCTTTTAGTTTGCAGCTTTTTGAATTTGgtacgcctct ... ttttcaacagAGGCATGCCCCTTTTGTAGAAGGGTCCGGGAAGCTTTGACTGAACTAGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattgaattttgtgattgtcccatcataaatctttcaagcattatttttcaacagAGGCATGCCCCTTTTGTAGAAGGGTCCGGGAAGCTTTGACTGAACTAGATCTTTCTGTAGAG
                                         ttatttttc  CT-rich tract
                                        attatttttcaaca  TA-rich tract