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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACGTCATCCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTGgtaagcgtgtcgatatgatccgtcgtctttgctggctgtacatgctaactttccatcgcttcttggatgcaatgcaacag

Basic information

species Zea mays
transcript GRMZM2G067022_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G067022_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os05g37470.1 (Oryza sativa), 5'ss of exon 6
CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACGTCATCCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTGgtaagcgtgtcgatatgatccgtcgtctttgctggctgtacatgctaactttcca---tcgcttcttggatg-caatgcaacag------------------
|||||||||||||||||||||||||||||||||||||||||||||| |||||||  ||||| ||||||| ||||||||||||||||| ||||||||||||||||| ||||  |  |   || | | |||| ||     |||     || |  ||        | ||   ||  ||||   | |                   
CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACATCATCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgtgcagcta--cctttgccttttctttacttaccattaaattgcccgagtagattcctcatatatcaatatgaaacatgcactgtttgtctaaa

upper sequence: GRMZM2G067022_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT5G01240.2 (Arabidopsis thaliana), 5'ss of exon 6
CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACGTCATCCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTGgtaagcgtgtcgatatgatccgtcgtctttgctggctgta---catgctaact-ttccatcgcttct-tggatgcaatgcaacag-----------------
 || ||||| || || || ||  | || || | ||||||||||||  ||||||| ||| | ||||||||||||||||||||| |||| || ||| |   ||||      |   | |    ||    | || |      ||    || ||||   ||  ||   |||  | ||||  || ||                     
AATAAACTCGGCAGTTGGAGCCTTACTTGTTACCTTCACCGTCTATATCATCCCTGCCTTAGCCCACATGCTCACGTACCGCACCGCCTCTGCCCGCCGGgtacctacattcttct--ctcgctcacattaccattcctaaactatactaaagattttatgaattcagtagatgacatacatttatttcatttagatagata

upper sequence: GRMZM2G067022_T01 (Zea mays), 5'ss of exon 3
lower sequence: EFJ21839 (Selaginella moellendorffii), 5'ss of exon 7
CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACGTCATCCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTGgtaagcgtgtcgatatgatccgtcgtctttgctggctgtacatgctaactttccatcgcttcttggatgcaatgcaacag--------------------------
 ||||||||||| ||||| ||||||||||||| |||||| |||||  |||||||  | ||||| |||||| |||||||  |  | || | ||||||   ||||||  | |||  |  |||  |||| ||| ||||  || | | |  |||   | |  | | |||  |||     |  ||                          
AATCAACTCCGCGGTCGGGGCGCTCCTCGTCACCTTCACTGTCTATATCATCCCCTCGCTCGCACACATGATCACGTATAGAACAGCCTTCGCCAGGGCGgtaagtttctcg-caaaatc--tcgttttt-ctggaagttcttcc--actcctcgtttccttttgagtgccggagatgagattatttttcttgcttgtttctctag

upper sequence: GRMZM2G067022_T01 (Zea mays), 5'ss of exon 3
lower sequence: EFJ34222 (Selaginella moellendorffii), 5'ss of exon 7
CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACGTCATCCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTGgtaagcgtgtcgatatgatccgtcgtctttgctggctgtacatgctaactttccatcgcttcttggatgcaatgcaacag---------------------------
 ||||||||||| ||||| ||||||||||||| |||||| |||||  |||||||  | ||||| |||||| |||||||  |  | || | ||||||   ||||||  | |||  |  |||  |||| ||| ||||  || | | |  |||   | |  | | |||  ||| |   |  ||                           
AATCAACTCCGCGGTCGGGGCGCTCCTCGTCACCTTCACTGTCTATATCATCCCCTCGCTCGCACACATGATCACGTATAGAACAGCCTTCGCCAGGGCGgtaagtttctcg-caaaatc--tcgttttt-ctggaagttcttcc--actgctcgtttcct-ttgagtgccaaagatgagattttttttcttgcttgtttctctgag

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|78113175|gb|DV531569.1|DV531569
EST:     TCCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTG                         AACGCAGCGGAGAAGCCGCCGTCCTTCTTGCCGAGCTGGTCGGGGATGTTC
genomic: TCCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTGgtaagcgtgt ... aatgcaacagAACGCAGCGGAGAAGCCGCCGTCCTTCTTGCCGAGCTGGTCGGGGATGTTC
EST: gi|91870568|gb|EB400952.1|EB400952
EST:     CCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTG                         AAGGCAGCGGAGAAGCCGCCGTCCTTCTTCCCGAGCTGGTCGGGGATGTTC
genomic: CCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTGgtaagcgtgt ... aatgcaacagAACGCAGCGGAGAAGCCGCCGTCCTTCTTGCCGAGCTGGTCGGGGATGTTC
EST: gi|149086899|gb|EE176442.2|EE176442
EST:     TCCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTG                         AACGCAGCGGAGAAGCCGCCGTCCTTCTTGCCGAGCTGGTCGGGGATGTTC
genomic: TCCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTGgtaagcgtgt ... aatgcaacagAACGCAGCGGAGAAGCCGCCGTCCTTCTTGCCGAGCTGGTCGGGGATGTTC