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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtacgcgcgttctttgccgctatagctgcacaaagtccatctcgatctcttctgtgggaaaaaaggcttgtttttttgttttttttttttttttttgcagCCGGAGCCGGAGTTCCGCCCGCCGATGTCCGAGGTCGTGCAGCAGCTGGTGCGCCTGATGCAGAGGGCGGCCATCATAAGGCGGCAATCGGACGATCTGG

Basic information

species Zea mays
transcript GRMZM2G162531_T04
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G162531_T04 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os06g42800.1 (Oryza sativa), 3'ss of exon 15
gtacgtacgcgcgttctttgccgctatagctgcacaaagtccatctc-gatctcttctgtgggaaaaaaggcttgtttttttgttttttttttttttt-----tttgcagCCGGAGCCGGAGTTCCGCCCGCCGATGTCCGAGGTCGTGCAGCAGCTGGTGCGCCTGATGCAGAGGGCGGCCATCATAAGGCGGCAATCGGACGATCTGG
            | | || |     |||    |   || | |   || ||      ||  |    |  |   || |   |||||    |  |  | |      |||| |||| || ||||||||||| || |||||||||||||| || ||||| |||||||||||| ||||||||||   |||  | ||||| ||||| |  ||    |
----------ttggttttggataacatatgaactagaaatactcttcagaagcacgctaagatcgatcatcattttcagtttgtaccataatgctgtcaatgctttgtagCCCGAACCGGAGTTCCGTCCACCGATGTCCGAGGTTGTCCAGCAACTGGTGCGCCTGGTGCAGAGGGCAAGCATGGTGAGGCGTCAATCAGGAGAGGATG
















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|148979704|gb|EE026779.2|EE026779
EST:     CTTCCAAGTCCCTCTCCCGTTTCGCCGACATCATCGCCATCTGCGTCCAG                         CCGGAGCCGGAGTTCCGCCCGCCGATGTCCGAGGTCGTGCAGCAGCTGGTG
genomic: CTTCCAAGTCCCTCTCCCGTTTCGCCGACATCATCGCCATCTGCGTCCAGgtacgtacgc ... ttttttgcagCCGGAGCCGGAGTTCCGCCCGCCGATGTCCGAGGTCGTGCAGCAGCTGGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcttctgtgggaaaaaaggcttgtttttttgttttttttttttttttttgcagCCGGAGCCGGAGTTCCGCCCGCCGATGTCCGAGGTCGTGCAGCAGCTGGTGCGCCTGATGCAGAGGGCGGCCATCATAAGGCGGCAATCGGACGATCTGG
                     cttgtttttttgtttt  CT-rich tract
             aaaaaaggcttgtttt  TA-rich tract