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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCTTACCTGCACGTGGTCTGGAACATCGGCGGTACGCTGACAATGCTCGGTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgtccgcccgtgatccgtcgtgtcgtccgttcgtctctccttcgtcagttgacacaaccgaaattgtccattgcgccttcgtctctcacactgtgttgccctgtttgtgcgcgtgcgtgtgtgcag

Basic information

species Zea mays
transcript GRMZM2G029087_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G029087_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g03280.3 (Oryza sativa), 5'ss of exon 2
CGCTTACCTGCACGTGGTCTGGAACATCGGCGGTACGCTGACAATGCTCGGTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtc-cgtccgcccgtgatccgtcgtgtcgtccgttcgtctctccttcgtcagttgacacaaccgaaattgtccattgc-gccttcgtctctcacac--tgtgttgccctgttt---gtgcgcgtgcgtgtgtgcag
||| ||||||||||| | || |||||||||||| | | |||| |||||||| ||||| || |||||||||||| | ||||||||||| ||||  ||||||||  ||| || |  |   || |    |   |    || | |  ||  |      | ||    | |  ||| || |   || | | |   |||    |||   |||| || | | |||    ||      | |||| ||||
CGCATACCTGCACGTCGCCTTGAACATCGGCGGGATGTTGACTATGCTCGGGTGCGTGGGGAGCATCGCCTGGTTGTTCTCGGTGCCTGTCTTTGAGGAGgttcgtctcggcttcttctgctgatcctgataactcgattgcttcctccctagaaatt----cgatggaagttttggtttactgacaatgtcaaatacatggtgtgctgactttttttttatgtcttaccctgtgagcag
















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|211089859|gb|FL268126.1|FL268126
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211089857|gb|FL268124.1|FL268124
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGG
EST: gi|211089853|gb|FL268120.1|FL268120
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211094787|gb|FL268142.1|FL268142
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGANGTATGGGCTGCTGATGGCGGCTGCC-TCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211092318|gb|FL268133.1|FL268133
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|8367634|gb|BE050579.1|BE050579
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGC
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGC
EST: gi|211092323|gb|FL268138.1|FL268138
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211097262|gb|FL268158.1|FL268158
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCC-TCCTGGAAG-CGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|37423268|gb|CF649361.1|CF649361
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211092321|gb|FL268136.1|FL268136
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211089855|gb|FL268122.1|FL268122
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211097261|gb|FL268157.1|FL268157
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAA
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAA
EST: gi|149108188|gb|EE292533.2|EE292533
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211092325|gb|FL268140.1|FL268140
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211089854|gb|FL268121.1|FL268121
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211089852|gb|FL268119.1|FL268119
EST:     GTTGCGTCGGCMGCATCGCCTGGCTCTTCTCGGTGCC-GTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCC-TCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211092315|gb|FL268130.1|FL268130
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211094791|gb|FL268146.1|FL268146
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211094796|gb|FL268151.1|FL268151
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211094799|gb|FL268154.1|FL268154
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCC-TCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211094795|gb|FL268150.1|FL268150
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCC-TCCTGGAAG-CGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|37417079|gb|CF646193.1|CF646193
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGACGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCT
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCT
EST: gi|94476340|gb|EB705298.1|EB705298
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211097263|gb|FL268159.1|FL268159
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211092324|gb|FL268139.1|FL268139
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         WGGATGAGGTNTGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211092313|gb|FL268128.1|FL268128
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGANGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAAGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211094800|gb|FL268155.1|FL268155
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211094798|gb|FL268153.1|FL268153
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGA
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGA
EST: gi|211092319|gb|FL268134.1|FL268134
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211094794|gb|FL268149.1|FL268149
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|101392580|gb|EB818220.1|EB818220
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211097267|gb|FL268163.1|FL268163
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGAAG                         AGGAAGAAGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG
EST: gi|211092317|gb|FL268132.1|FL268132
EST:     GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAG                         AGGAAGAGGTATGGGCTGCTGATGGCGGCTGCC-TCCTGGAAG-CGCTTCG
genomic: GTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgt ... gtgtgtgcagAGGAAGAGGTATGGGCTGCTGATGGCGGCTGCCCTCCTGGAAGGCGCTTCG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCTTACCTGCACGTGGTCTGGAACATCGGCGGTACGCTGACAATGCTCGGTTGCGTCGGCAGCATCGCCTGGCTCTTCTCGGTGCCCGTCTACGAGGAGgtcagtccgtccgcccgtgatccgtcgtgtcgtccgttcgtctctccttcgtcagttgacacaaccgaaattgtccattgcgccttcgtctctcacactgtgttgccctgtttgtgcgcgtgcgtgtgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG