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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTAGTTGCTGAATACTACCAACAGCAAGTGGAAATGCTAGAGGGCTTTAATGAAATGGATACACTTACTGATCGTGGTTTTCTTCCAGGAATGTCCAAGgtatgtttgataagcttttctgttgtaacagtagggaagacaaattgtttaacaactgcattgcaacactgaacataaatttatttgcctgtag

Basic information

species Oryza sativa
transcript LOC_Os01g62070.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g62070.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G014454_T01 (Zea mays), 5'ss of exon 2
CGTAGTTGCTGAATACTACCAACAGCAAGTGGAAATGCTAGAGGGCTTTAATGAAATGGATACACTTACTGATCGTGGTTTTCTTCCAGGAATGTCCAAGgtatgtttgataagcttttctgttgtaacagtagggaagacaaattgtttaacaactgcattgcaacactgaacataaatttatttgcctgtag------------------------------------------------------
 || |||||||||||||| |||||||||||||| ||||| ||||| |||| ||| ||||| |||||||| ||||||||||| ||||| |||||||||||||||| ||   || |     |  | || |  ||||   |     || ||| |  | |    || |  |||||    |   | || ||   | |                                                        
TGTTGTTGCTGAATACTATCAACAGCAAGTGGAGATGCTTGAGGGTTTTAGTGAGATGGACACACTTACAGATCGTGGTTTCCTTCCTGGAATGTCCAAGgtatattatgtatgaacgacattagtgaaggtagcttatgtggat-gttaatgatcaaattttcctcactgtgtttgtttctacttctttttttaagaaagtgagactgcatcaataaatgcttgataaccactttattgacctgcag

upper sequence: LOC_Os01g62070.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G056283_T01 (Zea mays), 5'ss of exon 3
CGTAGTTGCTGAATACTACCAACAGCAAGTGGAAATGCTAGAGGGCTTTAATGAAATGGATACACTTACTGATCGTGGTTTTCTTCCAGGAATGTCCAAGgtatgtttgata-agcttttctgttgtaacagtagggaagacaaattgtttaacaactg-cattgcaacactgaaca-taaatttatttgcctgtag-----------------------------------------------
 || |  ||||| |||||| ||||||| ||||| ||| ||||||| |||| ||| |||||  || |||| ||||||| ||| || || | ||||||||||||||| |  |||  |  ||||||||  |||| ||||||||  || || | |      |   | |  ||   |   || || |||| ||   || |                                                 
TGTTGCCGCTGAGTACTACAAACAGCAGGTGGAGATGTTAGAGGGTTTTAGTGAGATGGACGCATTTACAGATCGTGCTTTCCTACCTGTAATGTCCAAGgtatgctatatatggactttctgtttgaacattagggaaggtaacttatgtggatgttaataatcaaattttcttcactatattttttcttctttttaatagtgacgacaccaatagatatctggccactttattgacctgcag

upper sequence: LOC_Os01g62070.3 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv13s0019g00020.t01 (Vitis vinifera), 5'ss of exon 2
CGTAGTTGCTGAATACTACCAACAGCAAGTGGAAATGCTAGAGGGCTTTAATGAAATGGATACACTTACTGATCGTGGTTTTCTTCCAGGAATGTCCAAGgt----atgtttgataagcttt-----tctgttgtaacagtagggaagac---aaattgtttaacaactgcattgcaacactgaacataaatttatttg-cctgtag
 |  || ||||| || || || ||||| || |||||||| ||||||||||||||||||||| |  |  | || | ||| | | ||||  ||||| |  ||||    |  ||  ||  ||  |     | |  | ||| ||||| |    |   |  ||||| |||            | ||| ||    ||||  || |   || ||
TGATGTGGCTGAGTATTATCAGCAGCAGGTAGAAATGCTGGAGGGCTTTAATGAAATGGATGCCTTGGCAGAGCATGGATATATTCCTCGAATGACAGAGgttcatactttccatcggccatcaccctattctttaaaagtagtgtgttcttgatcttgttaaactctaaatgcctcagactaaatggtaattgtttgggtttgcag

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|29661349|gb|CB657624.1|CB657624
EST:     ATGAAATGGATACACTTACTGATCGTGGTTTTCTTCCAGGAATGTCCAAG                         GAAGAGCGTGAGAAGGTTGCTAGGAGTGAGACTTTAGCCATCCGGCTATCG
genomic: ATGAAATGGATACACTTACTGATCGTGGTTTTCTTCCAGGAATGTCCAAGgtatgtttga ... ttgcctgtagGAAGAGCGTGAGAAGGTTGCTAGGAGTGAGACTTTAGCCATCCGGCTATCG
EST: gi|86829882|gb|CI288565.1|CI288565
EST:     ATGAAATGGATACACTTACTGATCGTGGTTTTCTTCCAGGAATGTCCAAG                         GAAGAGCGTGAGAAGGTTGCTAGGAGTGAGACTTTAGCCATCCGGCTATCG
genomic: ATGAAATGGATACACTTACTGATCGTGGTTTTCTTCCAGGAATGTCCAAGgtatgtttga ... ttgcctgtagGAAGAGCGTGAGAAGGTTGCTAGGAGTGAGACTTTAGCCATCCGGCTATCG
EST: gi|313084001|gb|HO213784.1|HO213784
EST:     ATGAAATGGATACACTTACTGATCGTGGTTTTCTTCCAGGAATGTCCAAG                         GAAGAGCGTGAGAAGGTTGCTAGGAGTGAGACTTTAGCCATCCGGCTATCG
genomic: ATGAAATGGATACACTTACTGATCGTGGTTTTCTTCCAGGAATGTCCAAGgtatgtttga ... ttgcctgtagGAAGAGCGTGAGAAGGTTGCTAGGAGTGAGACTTTAGCCATCCGGCTATCG