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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCATACGCGGAAGTTGAGGTTATGAAGATGTGCATGCCTCTCTTGTCACCTGCTTCTGGTGTCATTCATTGTATGATGTCTGAGGGCCAGGCATTGCAGgttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttag

Basic information

species Zea mays
transcript GRMZM5G858094_T01
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G858094_T01 (Zea mays), 5'ss of exon 19
lower sequence: LOC_Os05g22940.1 (Oryza sativa), 5'ss of exon 21
ACCATACGCGGAAGTTGAGGTTATGAAGATGTGCATGCCTCTCTTGTCACCTGCTTCTGGTGTCATTCATTGTATGATGTCTGAGGGCCAGGCATTGCAGgttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttag
|||||| |||||||||||||||||||||||||||||||| ||||| ||||| |||||||||||||| |||  | | |||||||||||||| ||| ||||||| | ||||  |||| ||||||| |||   ||||||  ||| |    | |||||| ||||        ||||| | | || || |||
ACCATATGCGGAAGTTGAGGTTATGAAGATGTGCATGCCCCTCTTATCACCCGCTTCTGGTGTCATACATGTTGTAATGTCTGAGGGCCAAGCAATGCAGgt-acattcctacat-tccattcattgtgctgtgctgacatga----acatttcaagtaaatacctgtaacttgtttattattctag

upper sequence: GRMZM5G858094_T01 (Zea mays), 5'ss of exon 19
lower sequence: GLYMA06G11120.1 (Glycine max), 5'ss of exon 18
ACCATACGCGGAAGTTGAGGTTATGAAGATGTGCATGCCTCTCTTGTCACCTGCTTCTGGTGTCATTCATTGTATGATGTCTGAGGGCCAGGCATTGCAGgttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttag
|||||| || ||||||||||| ||||| ||||||||||||||  | || |||||||||||  | |||||||  |  |||||||| || || ||| ||||||| ||||     ||| || |||||   |||||    | ||     | |||||  | |  | | | |   | |   | | | ||  ||
ACCATATGCTGAAGTTGAGGTCATGAAAATGTGCATGCCTCTTCTTTCGCCTGCTTCTGGGATTATTCATTTCAAAATGTCTGAAGGTCAAGCAATGCAGgt-atat---agcat-tctattcc--acattggaagtacaggtgttcatattgaaagagataataaaatagtatcactgt-ttgcag

upper sequence: GRMZM5G858094_T01 (Zea mays), 5'ss of exon 19
lower sequence: GLYMA04G11550.1 (Glycine max), 5'ss of exon 18
ACCATACGCGGAAGTTGAGGTTATGAAGATGTGCATGCCTCTCTTGTCACCTGCTTCTGGTGTCATTCATTGTATGATGTCTGAGGGCCAGGCATTGCAGgttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttag--
||| || || ||||||||||| ||||| ||||||||||||||  | || |||||||||||  | |||||||  |  |||||||| || || ||| ||||||| ||||     ||| || |||||   ||| |    | ||     | | |||  |   ||   | || || || |||    ||||    
ACCGTATGCTGAAGTTGAGGTCATGAAAATGTGCATGCCTCTTCTTTCGCCTGCTTCTGGGATTATTCATTTCAAAATGTCTGAAGGTCAAGCAATGCAGgt-atat---agcat-tctattcc--acataggaagtacaattgttgaaattgaa---aaagataataaaattgtatcaccttttgcag

upper sequence: GRMZM5G858094_T01 (Zea mays), 5'ss of exon 19
lower sequence: AT1G36160.1 (Arabidopsis thaliana), 5'ss of exon 18
ACCATACGCGGAAGTTGAGGTTATGAAGATGTGCATGCCTCTCTTGTCACCTGCTTCTGGTGTCATTCATTGTATGATGTCTGAGGGCCAGGCATTGCAGgttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttag
 || || || ||||||||||| ||||||||||||||||| ||  | ||||||||||| || || || |||| ||  |||||||| || || ||  ||||||||   |||     |   ||        |  || || |    |   | ||   |||  |  |||| |    | | |           
GCCTTATGCCGAAGTTGAGGTCATGAAGATGTGCATGCCACTTCTTTCACCTGCTTCAGGAGTTATCCATTTTAAAATGTCTGAAGGACAAGCCATGCAGgttcacttcattgctaaacaaaaagcctacagttctgtttaaattgattaacccatccattatttttt---tcacag----------

upper sequence: GRMZM5G858094_T01 (Zea mays), 5'ss of exon 19
lower sequence: Vv18s0001g04980.t01 (Vitis vinifera), 5'ss of exon 19
ACCATACGCGGAAGTTGAGGTTATGAAGATGTGCATGCCTCTCTTGTCACCTGCTTCTGGTGTCATTCATTGTATGATGTCTGAGGGCCAGGCATTGCAGgttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttag
||| || || || |||||||||||||||||||| ||||| ||  | || |||||||||||  | ||||| | || ||||||||| || || ||| ||||||| | ||      |||| |         ||||    ||  |   ||  |||     |||    |||  || | | ||||||| |   
ACCGTATGCAGAGGTTGAGGTTATGAAGATGTGTATGCCACTTCTTTCGCCTGCTTCTGGAATTATTCAATTTAAGATGTCTGAAGGTCAAGCAATGCAGgtaaaat------atgttc------catattggaagttt-tagtatcctatccttggtagagattaagaaatcacattttgtgtag-

upper sequence: GRMZM5G858094_T01 (Zea mays), 5'ss of exon 19
lower sequence: PP1S13_171V6.1 (Physcomitrella patens), 5'ss of exon 17
ACCATACGCGGAAGTTGAGGTTATGAAGATGTGCATGCCTCTCTTGTCACCTGCTTCTGGTGTCATTCATTGTATGATGTCTGAGGGCCAGGC----ATTGCAGgttatattcgcacatgtccattccttgcattgtgctttcatcacataatatttcatgtaacatttatcaacttatattttgttttag--------------------------------------
 ||||||||||| || |||||||||||||||||||||||||| |||   || || |||||   ||||||||  |   |||||||||||  |||    || | | ||| | ||   | || | | ||  |  || | |  | ||||    | |||    | |||| ||||   || | | || | | | |                                        
TCCATACGCGGAGGTGGAGGTTATGAAGATGTGCATGCCTCTTTTGAGCCCAGCATCTGGAACCATTCATTTCAGATTGTCTGAGGGCTCGGCCATGATGgtatgttgtctttttagattttc-tttgtgacactattgtctcattt--tcataaacaaagtaaaattt-cgaagtgaaatatgggtgtgatgtgttgagttaagatgtgccttccccttgtattccag

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|32803950|gb|CD956186.1|CD956186
EST:     CTGCTTCTGGTGTCATTCATTGTATGATGTCTGAGGGCCAGGCATTGCAG                         GCTGGTGATCTTATAGCAAGGTTGGATC
genomic: CTGCTTCTGGTGTCATTCATTGTATGATGTCTGAGGGCCAGGCATTGCAGgttatattcg ... tttgttttagGCTGGTGATCTTATAGCAAGGTTGGATC