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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattccccttctctcctgattaatgacgaatactattatactatatccattgtactgatgaacagaaatattaggttggtgttggtctaatgcttgatattttccaaatataacctgactaaattctgatgtccgttacttagGATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTTGACACAGTCTGGTTTATGGCAGGTTCTCTATTTCAG

Basic information

species Glycine max
transcript GLYMA19G22520.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G22520.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G047695_T01 (Zea mays), 3'ss of exon 3
gtattccccttctctcctgattaatgacgaatactattatactatatccattgtactgatg-aacagaaatattaggttggtgttggtctaatgcttgatattttccaaatataacc-tgactaaattctgatgtccgttacttagGATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTTGACACAGTCTGGTTTATGGCAGGTTCTCTATTTCAG
                    ||| ||     |  || |||  |  |||     |    ||  ||||  | |  |   ||| | |||    | | |  |||||| |  ||  | |    |  |  ||    | ||     |    ||||||||||| ||   || || || |||||||| | |||||||||||| ||||||||| | ||||||||||||||||| |||||||||
-------------------gttagtgg----ttttactatgttgcatctcaattctcaatataacattattgcttt-ttgatattgaaggattacacgatattctgtaagaacattaatatcctaacatagctgatatatttgcagGATGAAGTTGTTGCTAGAGATGAGGCAATAAGGAGAGAGTATAATGAGCTTGACACATTGTGGTTTATGGCAGGTTCACTATTTCAG

upper sequence: GLYMA19G22520.2 (Glycine max), 3'ss of exon 3
lower sequence: AC198982.3_FGT006 (Zea mays), 3'ss of exon 1
gtattccccttctctcctgattaatgacgaatactattatactatatccattgtactgatg-aacagaaatattaggttggtgttggtctaatgcttgatattttccaaatataacc-tgactaaattctgatgtccgttacttagGATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTTGACACAGTCTGGTTTATGGCAGGTTCTCTATTTCAG
                    ||| ||     |  || | |  | ||||     |    ||| ||||  | |   |  |||  ||||    | |  |  ||||| | |||| | | |  |  |  || |  ||||     |    ||||||||||| ||   || || || |||||||| | |||||||||||| ||||||||| | ||||||||||||||||| |||||||||
-------------------gttagtgg----ttttactcttttgtatctcaattctcaatgtaacattattgccat-ttgacgttgcaggattattcaatattctgcaaaaacatcaatatcctaacttagatgatatgtttgcagGATGAAGTTGTTGCTAGAGATGAGGCAATAAGGAGAGAGTATAATGAGCTTGACACATTGTGGTTTATGGCAGGTTCACTATTTCAG

upper sequence: GLYMA19G22520.2 (Glycine max), 3'ss of exon 3
lower sequence: PP1S181_117V6.1 (Physcomitrella patens), 3'ss of exon 3
gtattccccttctctcctgattaatgacgaatactattatactatatccattgtactgatgaacagaaatattaggttggtgttggtctaatgcttgatatt---ttccaaatataacctgactaaattctgatgtccgtta-----cttagGATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTTGACACAGTCTGGTTTATGGCAGGTTCTCTATTTCAG
                                                |  ||     || || || |    |   ||  | ||  || | ||   ||| ||   |  || || |    | | ||| |     | ||  ||       | |||| | |||  |  | ||    | ||  || | |   || ||  | |||||||||||||| ||||||||||| |||||| ||||  ||
------------------------------------------------cgatgactcaataaaaaggag--atgacttaatctt--tccagtgtcagattttaactatcatatttcttttaagtaagtgacattttctcttgaatggttcagGAGGTAGTGTTAGAGAGATTGGCAGGTATCAAACGGGAATACGAAGAACTTGACACAGTGTGGTTTATGGCGGGTTCTTTATTCAAG

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|7326903|gb|AW620701.1|AW620701
EST:     TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAG                         GATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
genomic: TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAGgtattcccct ... cgttacttagGATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
EST: gi|15287126|gb|BI471017.1|BI471017
EST:     TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAG                         GATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
genomic: TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAGgtattcccct ... cgttacttagGATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
EST: gi|20815055|gb|BQ299533.1|BQ299533
EST:     TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAG                         GATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
genomic: TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAGgtattcccct ... cgttacttagGATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
EST: gi|19348475|gb|BM893007.1|BM893007
EST:     TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAG                         GATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
genomic: TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAGgtattcccct ... cgttacttagGATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
EST: gi|17153028|gb|BM142961.1|BM142961
EST:     TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAG                         GATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
genomic: TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAGgtattcccct ... cgttacttagGATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
EST: gi|26058132|gb|CA801046.1|CA801046
EST:     TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAG                         GATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
genomic: TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAGgtattcccct ... cgttacttagGATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
EST: gi|20814963|gb|BQ299441.1|BQ299441
EST:     TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAG                         GATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT
genomic: TTCTATGGTTAAAATCTGAGCTGGATTACCTGTCAGGAAGTCCAATTAAGgtattcccct ... cgttacttagGATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgcttgatattttccaaatataacctgactaaattctgatgtccgttacttagGATGAAGTTATTCAAAGGGAAGAAGCAATAAGAAAAGAGTATAATGAACTTGACACAGTCTGGTTTATGGCAGGTTCTCTATTTCAG
        atattttccaaatata  TA-rich tract