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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaattcctttctttttttttacaattttatcaatgatatttcatgcaatgacttggttaattgtttttcactttttttcttctaactttctgattgcagGTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTATCGGAAAAACAGATATATCGACTGCACTGGAAAGACCTTCAGG

Basic information

species Glycine max
transcript GLYMA05G37850.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G37850.3 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os07g27790.1 (Oryza sativa), 3'ss of exon 9
---------------------------------------------tgaattcctttcttttttttta------caattttatcaatgatatttcatgcaatgacttggttaattgtttttcactt---tttttcttctaactttctgatt----gcagGTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTATCGGAAAAACAGATATATCGACTGCACTGGAAAGACCTTCAGG
                                              |||  |      |||  || |      || |||   ||| ||||||| |  || |||  ||     ||   | | |||    || |  || ||  ||  |  ||    |||||||||||| |||||| || |||||  | ||||| || ||||||||||||||||| || || |  || || ||||| ||||||| | | ||  ||
gttagtatatataatttcataccattcgaccctcttcccccacccagaacactggcaatttgattgaagacctcattttggccaaagatattttacaca-tgaaatgaaggtttccatgttactgaaattctgattatagtttgtttctttgatgcagGTTTGAGCGATATGTGGACTATGCATTAGATGTCCCGATGTATTTTGTCTATCGAAATAAGAAGTACATTGACTGTACTGGAATGTCATTTCGG

upper sequence: GLYMA05G37850.3 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G020096_T01 (Zea mays), 3'ss of exon 8
--------------tgaattcctttctttttt-tttacaattttatcaatgatatttcatgcaatgacttggttaat--tgtttttcactt-------tttttcttctaactttct----gattgcagGTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTATCGGAAAAACAGATATATCGACTGCACTGGAAAGACCTTCAGG
              |||| |||   ||        |  | |   |  |||   |||   |||       |  ||||   ||||||  |  |       |  |  || ||  ||  |    |  |||||||||||||||||||| ||||||||  | ||||| || ||||||||||| || || || || |  ||||| |||||||| |||| | | ||  ||
gttagcatttcttttgaactccccactcccccaccttgagtgccagtaatttgattgattgcttcattctctttaaagatgttttcaatgtgaaagcatcctaattatagtttcttttgggggtgcagGTTTGAGCAATATGTGGATTATGCATTAGATGTCCCCATGTATTTTGTGTACCGAAATAATAAGTATATTGACTGCACCGGAATGTCATTTCGG

upper sequence: GLYMA05G37850.3 (Glycine max), 3'ss of exon 9
lower sequence: AT4G23100.3 (Arabidopsis thaliana), 3'ss of exon 9
tgaattcctttcttt----ttttttacaattttatcaatgatatttcatgcaatgacttggttaattgtttttcactttttttcttctaactttctg-attgcagGTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTATCGGAAAAACAGATATATCGACTGCACTGGAAAGACCTTCAGG
||  |||            |  |||  |  ||||||       | || || ||   | ||| ||||  |  ||   ||  | |||| |    || |    |  ||||||||||| |||||||| || || || ||||| |||||||| |||| |||  | || |||| ||| |||||||| ||||||| ||| ||  ||
tgtgttcaagatagaaagatgctttggatctttatc-----cttctcttgaaacagcatggctaatcttaattttattgctctcttttgttcttatctggtatagGTTTGAGCAGTATGTTGACTACGCACTCGATGTCCCTATGTACTTTGCCTACAGAAAGAACAAATACATCGACTGTACTGGAATGACATTTCGG

upper sequence: GLYMA05G37850.3 (Glycine max), 3'ss of exon 9
lower sequence: Vv02s0025g03530.t01 (Vitis vinifera), 3'ss of exon 9
-----tgaattcctttctttttttttacaattttatcaatgatatttcatgcaatgacttggttaattgtttttcactttttttcttctaactttctgattgcagGTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTATCGGAAAAACAGATATATCGACTGCACTGGAAAGACCTTCAGG
         |   ||||  |||||||  |  | |     ||| | ||      || | |  |  ||| || || |  ||| |||||  |   | |||| | |||| |||||||| ||||| |||||||||||||||||||| ||||| |||||||||||||| || |  ||||| ||||| ||||||| | ||||| ||
aaaggaagctggttttccatttttttttatgtattctgttgacagttttgttgattatt--gacaatggtattcctatttctttctatt--ttctctggt-gcagATTTGAGCAGTATGTAGATTATGCTCTTGATGTTCCAATGTACTTTGTCTATCGGAAGAAGAAGTATATTGACTGTACTGGAATGTCCTTCCGG

upper sequence: GLYMA05G37850.3 (Glycine max), 3'ss of exon 9
lower sequence: PP1S479_14V6.1 (Physcomitrella patens), 3'ss of exon 8
tgaattcctttctttttttttacaattttatcaatgatatttcatgca-atgacttggttaattgttttt---cactttttttcttctaac----tttctgat-tgcagGTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTATCGGAAAAACAGATATATCGACTGCACTGGAAAGACCTTCAGG
          | | || || |    |||       || |  |  |  | ||    | | |  |||||  |     ||  ||||||| |||      | |||   |||||||| ||  | || |||||||||||||| || |||||||||||||||||||| || ||     | ||  | |||||  ||||   | | || | |
---------ctatattcttatgaggtttggctgcagacaacttgtctagattgagttgctggttgttagtacgtgctcattttcttataatagaactgctgtcatgcagGTTCGAAAAGTACGTTGATTATGCTCTAGACGTTCCTATGTATTTTGTCTACCGTAACGGTCGGTACGTTGACTGTTCTGGTCTGTCATTTAAG

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|19348212|gb|BM892744.1|BM892744
EST:     GATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGG                         GTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTA
genomic: GATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGGgtaagagatt ... ctgattgcagGTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTA
EST: gi|13480024|gb|BG509367.1|BG509367
EST:     GATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGG                         GTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTA
genomic: GATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGGgtaagagatt ... ctgattgcagGTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTA
EST: gi|193446481|gb|FK415812.1|FK415812
EST:     GATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGG                         GTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTA
genomic: GATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGGgtaagagatt ... ctgattgcagGTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTA
EST: gi|19453403|gb|BM954813.1|BM954813
EST:     GATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGG                         GTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTA
genomic: GATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGGgtaagagatt ... ctgattgcagGTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTA
EST: gi|120493888|gb|EH222055.1|EH222055
EST:     GATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGG                         GTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTA
genomic: GATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGGgtaagagatt ... ctgattgcagGTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTA
EST: gi|9204205|gb|BE330429.1|BE330429
EST:     GATAAGGACCGCACAGGCATGCTGCCTTTTGTTNNTGATGACTCTTTTGG                         GTTTGAGCAATATGTTGATTATGCCTCT-GATGTTNCTATGTATTNTGTCT
genomic: GATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGGgtaagagatt ... ctgattgcagGTTTGAGCAATATGTTGATTATGC-TCTTGATGTTCCTATGTATTTTGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaatgacttggttaattgtttttcactttttttcttctaactttctgattgcagGTTTGAGCAATATGTTGATTATGCTCTTGATGTTCCTATGTATTTTGTCTATCGGAAAAACAGATATATCGACTGCACTGGAAAGACCTTCAGG
                ttgtttttcacttttt  CT-rich tract
            ttaattgtttttcact  TA-rich tract