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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcacacccaaatacacgttttctgctttctgaatgatttgatcatgtcctaccttttttctttgtcgtttgtgatgtctgtttccattttcgttagGGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAG

Basic information

species Zea mays
transcript GRMZM2G105425_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G105425_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g54390.1 (Oryza sativa), 3'ss of exon 5
gtgcacacccaaatacacgttttctgctttctgaatgatttgatcatgtcctaccttttttcttt----gtcgtttgtgatgtctgtttccattttcgttagGGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAG
|||||||  |     ||  |    |  |||||| ||  | |  | |  |   || ||| | | |     ||   |  |  ||    |||   |||| || |||| ||  ||||||| |||||||||||||| || ||||||||||||||||||| ||| || |||||||||
gtgcacatgccttccca-atcgcttaatttctggattgtgttgtgaactttgacttttgtccgtctgaggtgcctctttgtgatcttttttttttttgtcagGGAGAGAGAGGTGCTCAGGTCCTTGTTGATCCTGAACTTGTTGACTATCTGACTTCCACACTTGAAAAG
















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|60339679|gb|DN206652.1|DN206652
EST:     TTCTTGGGACAGGAATAACAAGGGAGAAAGTTGGAGATATTCTTTTGCAG                         GGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTG
genomic: TTCTTGGGACAGGAATAACAAGGGAGAAAGTTGGAGATATTCTTTTGCAGgtgcacaccc ... ttttcgttagGGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTG
EST: gi|29577131|gb|CB617243.1|CB617243
EST:     TTCTTGGGACAGGAATAACAAGGGAGAAAGTTGGAGATATTCTTTTGCAG                         GGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTG
genomic: TTCTTGGGACAGGAATAACAAGGGAGAAAGTTGGAGATATTCTTTTGCAGgtgcacaccc ... ttttcgttagGGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTG
EST: gi|76292416|gb|DV031984.1|DV031984
EST:     TTCTTGGGACAGGAATAACAAGGGAGAAAGTTGGAGATATTCTTTTGCAG                         GGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTG
genomic: TTCTTGGGACAGGAATAACAAGGGAGAAAGTTGGAGATATTCTTTTGCAGgtgcacaccc ... ttttcgttagGGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTG
EST: gi|67013256|gb|CO442005.1|CO442005
EST:     TTCTTGGGACAGGAATAACAAGGGAGAAAGTTGGAGATATTCTTTTGCAG                         GGGGAACGATGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTG
genomic: TTCTTGGGACAGGAATAACAAGGGAGAAAGTTGGAGATATTCTTTTGCAGgtgcacaccc ... ttttcgttagGGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTG
EST: gi|76292415|gb|DV031983.1|DV031983
EST:     TTCTTGGGACAGGAATAACAAGGGAGAAAGTTGGAGATATTCTTTTGCAG                         GGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTG
genomic: TTCTTGGGACAGGAATAACAAGGGAGAAAGTTGGAGATATTCTTTTGCAGgtgcacaccc ... ttttcgttagGGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTG
EST: gi|78090612|gb|DV518986.1|DV518986
EST:     TTCTTGGGACAGGAATAACAAGGGAGAAAGTTGGAGATATTCTTTTGCAG                         GGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTG
genomic: TTCTTGGGACAGGAATAACAAGGGAGAAAGTTGGAGATATTCTTTTGCAGgtgcacaccc ... ttttcgttagGGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatgtcctaccttttttctttgtcgtttgtgatgtctgtttccattttcgttagGGGGAACGAGGTGCCCAGGTCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAG
                                   tctgtttccattttc  CT-rich tract
            ttttttcttt  TA-rich tract