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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttatgtgtttatgataaataaatttctttgttgatgctttctgagaattcatttgtgttcgctctggttactgaagctttgggcacttatttattgcagTGTGAAAGCAATGCACGCTTTGTAAAATGGAAGGATGGGACTATGCAGCTTCTGATTGGCAATGAGGTTCTTGATATATCTGTACATGAGGCGCATCATG

Basic information

species Zea mays
transcript GRMZM2G048494_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G048494_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g38970.1 (Oryza sativa), 3'ss of exon 5
cttatgtgtttatgataaataaatttctttgttgatgctttctgagaat---tcatttgtgttcgctctggttactgaagctttgggcacttatttattgcagTGTGAAAGCAATGCACGCTTTGTAAAATGGAAGGATGGGACTATGCAGCTTCTGATTGGCAATGAGGTTCTTGATATATCTGTACATGAGGCGCATCATG
  |   |  || |  |   | | | ||||| |   |  ||| ||| ||    |  || |||  |  | ||| ||   |     |        |||  |||||||||||||| ||||| ||| ||||||||||||| |||||||| |||||||| |||||||||||||| ||||||||||||||||| ||||| || |||||||
-cttcctcctttttttctgtcattgtcttt-taagtagtttgtgacaacaggtggttggtgcactatgtggctatccatatgatatatgagcatt-gttgcagTGTGAAAGTAATGCGCGCATTGTAAAATGGAAAGATGGGACCATGCAGCTGCTGATTGGCAATGAAGTTCTTGATATATCTGTTCATGAAGCACATCATG

upper sequence: GRMZM2G048494_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g01880.1 (Oryza sativa), 3'ss of exon 5
-cttatgtgtttatgataaataaatttctttgttgatgctttctgagaattcatttgtgttcgctctggttactgaagctttgggcacttatttattgcagTGTGAAAGCAATGCACGCTTTGTAAAATGGAAGGATGGGACTATGCAGCTTCTGATTGGCAATGAGGTTCTTGATATATCTGTACATGAGGCGCATCATG
   |   |  || |  |   | | |  | || |   |  ||| ||| |  |  |  |||  |  | ||| ||   |     |        |||  |||||||||||||| ||||| ||| ||||||||||||| ||||| || |||||||| |||||||| ||||| ||||||||||||||||||||||| || |||||||
ttcttcctccttttttttggtcattgcccttttaagtagtttgtgacaggtggtcggtgcactatgtggctatgcatatgataaatgagcatt-gttgcagTGTGAAAGTAATGCGCGCATTGTAAAATGGAAAGATGGAACGATGCAGCTGCTGATTGGTAATGAAGTTCTTGATATATCTGTACATGAAGCACATCATG
















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|149041295|gb|EE046931.2|EE046931
EST:     ACAATATTGTGCGGTGGAGAACCATTAGGAATGCAGATGGCACTACATCT                         TGTGAAAGCAATGCACGCTTTGTAAAATGGAAGGATGGGACTATGCAGCTT
genomic: ACAATATTGTGCGGTGGAGAACCATTAGGAATGCAGATGGCACTACATCTgtaagtggaa ... tttattgcagTGTGAAAGCAATGCACGCTTTGTAAAATGGAAGGATGGGACTATGCAGCTT
EST: gi|56691657|gb|CX129560.1|CX129560
EST:     ACAATATTGTGCGGTGGAGAACCATTAGGAATGCAGATGGCACTACATCT                         TGTGAAAGCAATGCACGCTTTGTAAAATGGAAGGATGGGACTATGCAGCTT
genomic: ACAATATTGTGCGGTGGAGAACCATTAGGAATGCAGATGGCACTACATCTgtaagtggaa ... tttattgcagTGTGAAAGCAATGCACGCTTTGTAAAATGGAAGGATGGGACTATGCAGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattcatttgtgttcgctctggttactgaagctttgggcacttatttattgcagTGTGAAAGCAATGCACGCTTTGTAAAATGGAAGGATGGGACTATGCAGCTTCTGATTGGCAATGAGGTTCTTGATATATCTGTACATGAGGCGCATCATG
                                         cttattt  CT-rich tract
                                        acttatttatt  TA-rich tract