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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATGCAGAGAATGGTGATGCTGTTGCCGAGGGACAACAGCGGATGATTGACCTTGGGATAACTGGTCCAGAAGGGCATGCTCTCTCAAGGCCTCCAATTgtaaccccaaatctaaccttctattcttctgttatgctcctagtcctagatatgttcaggttttcaataataattaggacactaaggaacctgccatctattctcacattaagctattcaaaaatgaaataattttgttctcattcactgcag

Basic information

species Zea mays
transcript GRMZM2G020002_T03
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G020002_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os01g59340.2 (Oryza sativa), 5'ss of exon 8
TCATGCAGAGAATGGTGATGCTGTTGCCGAGGGACAACAGCGGATGATTGACCTTGGGATAACTGGTCCAGAAGGGCATGCTCTCTCAAGGCCTCCAATTgtaaccccaaatctaaccttctattcttctgttatgctcctagtcctagatatgtt---cag-------gttttca---ataataattaggaca--ctaaggaacctgccatct------attctcacattaagctattcaaaaatg---aaataattttg------ttctcattcactgcag
||||||||||||||| ||||||||||| |||||||| || || ||||| || |||||||||||||| |||||||| |||||||||||||| |||||| ||||||   || |   |  ||||   | | |||||||||   |    || ||||||||   |||       ||||||    | |||| | | | ||   |   ||||  | ||         |||     |||        |||  | |   | |||   |||      ||||  ||| ||||||
TCATGCAGAGAATGGGGATGCTGTTGCTGAGGGACAGCAACGAATGATCGATCTTGGGATAACTGGCCCAGAAGGACATGCTCTCTCAAGACCTCCAGTTgtaatttcacactaactcttcgcatttactgttatgcctatttatcttgatatgttggacagatcaagtgttttcttatacaatattcaagtcaatttggtgaactagacacaccatgaaatttgtgtattttctctcacaaggaaggatagataccattgagctgcttcttgttccctgcag

upper sequence: GRMZM2G020002_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA14G04030.1 (Glycine max), 5'ss of exon 5
TCATGCAGAGAATGGTGATGCTGTTGCCGAGGGACAACAGCGGATGATTGACCTTGGGATAACTGGTCCAGAAGGGCATGCTCTCTCAAGGCCTCCAATTgtaaccccaaatctaaccttctattcttctgttatgctcctagtcctagatatgttcaggttttcaataataat-taggacactaaggaacctgccatctattctcacattaagctattcaaaaatgaaataattttgttctcattcactgcag
 |||||||| ||||| ||||||||    || || |||| |   ||||| || ||||| ||||||||||| || ||||||||||| ||||||||| || | ||||   |           || ||       || | ||  ||||     || ||   |    |  ||| | ||| | ||||| |        | || || ||  ||    |  | | |   |                                
CCATGCAGAAAATGGAGATGCTGTGTATGAAGGGCAACGGAAAATGATAGAACTTGGAATAACTGGTCCTGAGGGGCATGCTCTTTCAAGGCCTGCAGTGgtaatttc-----------tcaat------attgttcttttagtaaagaatttgcagaataatggaatgaaaatattggacatttttttgttt-ccttccatcttc----ttcgttgtctga--------------------------------

upper sequence: GRMZM2G020002_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA02G44690.1 (Glycine max), 5'ss of exon 5
TCATGCAGAGAATGGTGATGCTGTTGCCGAGGGACAACAGCGGATGATTGACCTTGGGATAACTGGTCCAGAAGGGCATGCTCTCTCAAGGCCTCCAATTgtaaccccaaatctaaccttctattcttctgttatgctcctagtcctagatatgttcaggttttcaataataattaggacactaaggaacctgccatctattctcacattaagctattcaaaaatgaaataattttgttctcattcactgcag
 ||||| || ||||| ||||||||    || || ||||||   ||||| || ||||| ||||||||||| |||||||||||||| ||||||||| || | ||||           |  ||  |   |   |  |||    |  |   | || | ||    | ||   |  |  ||      || |  |||||      |||    |  |                                            
CCATGCGGAAAATGGAGATGCTGTGTATGAAGGGCAACAGAAAATGATAGAACTTGGAATAACTGGTCCTGAAGGGCATGCTCTTTCAAGGCCTGCAGTGgtaaa---------gaatttgcagaataagggaatgaaaatgattgaacattt-tttgtttcttttcttcttcttcattgtctgaccaacctatagcatatgtgaatgtg-------------------------------------------

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|149082368|gb|EE171552.2|EE171552
EST:     ACCTTGGGATAACTGGTCCAGAAGGGCATGCTCTCTCAAGGCCTCCAATT                         TTAGAAGGAGAAGCAACTGCACGGGCAATCCGTTTAGCTAAG
genomic: ACCTTGGGATAACTGGTCCAGAAGGGCATGCTCTCTCAAGGCCTCCAATTgtaaccccaa ... ttcactgcagTTAGAAGGAGAAGCAACTGCACGGGCAATCCGTTTAGCTAAG
EST: gi|18659090|gb|BM500149.1|BM500149
EST:     ACCTTGGGATAACTGGTCCAGAAGGGCATGCTCTCTCAAGGCCTCCAATT                         TTAGAAGGAGAAGCAACTGCACGGGCAATCCGTTTAGCTAAGTTCATCAAT
genomic: ACCTTGGGATAACTGGTCCAGAAGGGCATGCTCTCTCAAGGCCTCCAATTgtaaccccaa ... ttcactgcagTTAGAAGGAGAAGCAACTGCACGGGCAATCCGTTTAGCTAAGTTCATCAAT
EST: gi|31355355|gb|CD439712.1|CD439712
EST:     ACCTTGGGATAACTGGTCCAGAAGGGCATGCTCTCTCAAGGCCTCCAATT                         TTAGAAGGAGAAGCAACTGCACGGGCAATCCGTTTGGCGAAGTTCATCAAT
genomic: ACCTTGGGATAACTGGTCCAGAAGGGCATGCTCTCTCAAGGCCTCCAATTgtaaccccaa ... ttcactgcagTTAGAAGGAGAAGCAACTGCACGGGCAATCCGTTTAGCTAAGTTCATCAAT