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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtttccgtcgtccgccggtccctggccgcaagaacaacaaccacccccgctcgctgcttgcgtgtgggcagagggtactgtggccacttgtatccccctgtttcgctgatgcatgatgaccttgttggctgctgtctctgcagAGGCCTACCTGCAGTCGCTCGCGAAAGCTCTGTCCCACTACTTCAAGGCGCGCTTACTAATTCTGGACGCCACCGACTTCTCTCTTCGG

Basic information

species Zea mays
transcript GRMZM2G128748_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G013115_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g50750.3 (Oryza sativa), 3'ss of exon 1
gttcgtttccgtcgtccgccggtccctggccgcaagaacaacaaccacccccgctcgctgcttgcgtgtgggcagagggtactgtggccacttgtatccccctgtttcgctgatgcatgatgaccttgttggctgctgtctctgcagAGGCCTACCTGCAGTCGCTCGCGAAAGCTCTGTCCCACTACTTCAAGGCGCGCTTACTAATTCTGGACGCCACCGACTTCTCTCTTCGG
             || ||  | |    | | ||  | ||  ||    |  | |   |   |       |   |      |   |||| ||||    || || || |  |||| ||     |||   |||  ||   |||   ||||||| ||||||||||||| || |||| ||||||||| ||||| | |||||| |  || ||||| ||||| | ||||||||||||||| |||
-------------gttcgtggatgttcg-ctgcttgcactgca----cttcagactggatcacattgatctccgtttcttctcgtggacact---gtcaccttgcta-gctgctgttgactgaatctgtccgcaa-tgtgcgtgcagAGCCCTACCTGCAGTCCCTAGCGAGAGCTCTGTCGCACTATTACAAGGCACAGTTGCTAATCCTGGATGTCACCGACTTCTCTCTCCGG
















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|101399707|gb|EB821700.1|EB821700
EST:     CGGAACCTCTCCGCCGGCCAGCCACGCCATCCTGCTCTCCGGCCCCACAG                         AGGCCTACCTGCAGTCGCTCGCGAAAGCTCTGTCCCACTACTT
genomic: CGGAACCTCTCCGCCG-CCAGCCACGCCATCCTGCTCTCCGGCCCCACAGgttcgtttcc ... gtctctgcagAGGCCTACCTGCAGTCGCTCGCGAAAGCTCTGTCCCACTACTT
EST: gi|74239320|gb|DT647234.1|DT647234
EST:     CCGGAACCTCTCCGCCGCCAGCCACGCCATCCTGCTCTCCGGCCCCACAG                         AGGCCTACCTGCAGTCGCTCGCGAAAGCTCTGTCCCACTACTTCAAGGCGC
genomic: CCGGAACCTCTCCGCCGCCAGCCACGCCATCCTGCTCTCCGGCCCCACAGgttcgtttcc ... gtctctgcagAGGCCTACCTGCAGTCGCTCGCGAAAGCTCTGTCCCACTACTTCAAGGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtatccccctgtttcgctgatgcatgatgaccttgttggctgctgtctctgcagAGGCCTACCTGCAGTCGCTCGCGAAAGCTCTGTCCCACTACTTCAAGGCGCGCTTACTAATTCTGGACGCCACCGACTTCTCTCTTCGG
               cgctgat  putative branch site (score: 4)
                                           ctgtctct  putative PPT