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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtacgtgcgtgtcatgcatgtccgatcctacgtaccaacgctctctctctctacctctctcccgatgacactgcatgcatgtcaatataattgcagTGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCAAACGGCCGGGACCATGGCAACTGCGTCTCCCTTCTTCGTGTCAAT

Basic information

species Zea mays
transcript GRMZM2G118063_T03
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G118063_T03 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os08g08820.1 (Oryza sativa), 3'ss of exon 9
gtacgta-cgtgcgtgtcatgcatgtccgatcctacgtaccaacgctctctctctctacctctctcccgatgacactgcatgcatgtcaatataattgcagTGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCAAACGGCCGGGACCATGGCAACTGCGTCTCCCTTCTTCGTGTCAAT
|| |  |   |||    ||| | |     ||    |  |     |||  |    | |    |     | |   || | |   |  ||    ||    |||||||||||| || |||||||| ||||| ||||||||||||||||| ||||| |||||||| |||||||||||||  ||||| |||||||||||||||
gtgcccaatttgccccccatccctagggaatttatccaatt--tgctgaccaaattttatacgtgatcaaattcattcctgacgagtttggatttccgcagTGGGACATTCTGTCCAACGGCGGCGCCGTCCAAGAAATGGCTCACATTGCCAACGGCCGTGACCATGGCAACTCTGTCTCGCTTCTTCGTGTCAAT

upper sequence: GRMZM2G118063_T03 (Zea mays), 3'ss of exon 9
lower sequence: EFJ19972 (Selaginella moellendorffii), 3'ss of exon 9
gtacgtacgtgcgtgtcatgcatgtccgatcctacgtaccaacgctctctctctctacctctctcccgatgacactgcatgcatgtcaata--taattgcagTGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCAAACGGCCGGGACCATGGCAACTGCGTCTCCCTTCTTCGTGTCAAT
                                   ||| ||  ||| ||  |   | | ||     ||| |    || ||   | |   |   |  |||||||||||||| ||||||||||||||    || ||||| |||||||| || || || || | ||| |  |||||| | ||||| ||||| |||||||| 
-----------------------------------gtaacagagct-tcgtttgatccatcaaaatcga-gtttttgtatcggttttcttggctttttgcagTGGGACATTCTCTCCAACGGTGGAATGGTGCAAGAGATGGCTCACATCGCCAAAGGACAGGATCCAGGCAACAGTGTCTCTCTTCTCCGTGTCAAC
















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|26558595|gb|CA830830.1|CA830830
EST:     CGCCCAAGAGGGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAG                         TGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCA
genomic: CGCCCAAGAGGGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAGgtacgtacgt ... ataattgcagTGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCA
EST: gi|87156118|gb|DY400907.1|DY400907
EST:     CGCCCAAGAGGGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAG                         TGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGATATGGCTCATATTGCT
genomic: CGCCCAAGAGGGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAGgtacgtacgt ... ataattgcagTGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCA
EST: gi|22472184|gb|BU036664.1|BU036664
EST:     CGCCCAAGAGGGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAG                         TGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCA
genomic: CGCCCAAGAGGGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAGgtacgtacgt ... ataattgcagTGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCA
EST: gi|76017721|gb|DT944891.1|DT944891
EST:     CGCCCAAGAGGGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAG                         TGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCA
genomic: CGCCCAAGAGGGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAGgtacgtacgt ... ataattgcagTGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCA
EST: gi|5566756|gb|AI881622.1|AI881622
EST:     CGCCCAAGAGGGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAG                         TGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCA
genomic: CGCCCAAGAGGGTCTTCGACTTCCTCCGCGACGAGACCTCTCGCAGCGAGgtacgtacgt ... ataattgcagTGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctctctctacctctctcccgatgacactgcatgcatgtcaatataattgcagTGGGACATCCTCTCCAACGGTGGCGCAGTCCAAGAAATGGCTCATATTGCAAACGGCCGGGACCATGGCAACTGCGTCTCCCTTCTTCGTGTCAAT
                                     atgtcaatataatt  TA-rich tract