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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCGTCGGCGCCCTACGGCTACGGCGCCGGCGGATGGAGCTACGACTCGCTCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccccgttcgcgattctccctgttcttctcgtcgtgggcgtgcgtttcagaaattccgggggctatagtcgttgtgactcgcgcaattagcatt...

Basic information

species Zea mays
transcript GRMZM2G029087_T02
intron # 1
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 1
lower sequence: LOC_Os02g03280.2 (Oryza sativa), 5'ss of exon 1
CGCGTCGGCGCCCTACGGCTACGGCGCCG-GCGGATGGAGCTACGACTCGCTCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccccgttcgcgattctccctgttcttctcgtcgtgggcgtgcgtttcagaaattccgggggctatagtcgttgtgactcgc---gcaattagcatt----
  | ||| || | |||||   ||||| || |||| ||| ||||||||||||| |||||||||||||||||| |||||||||||||| ||||||||||||||||||||  |  |  | |  ||||||||   | || || || | |  |   |||  | | ||     |  |   || | | ||  ||||   |      |  ||    
GACCTCGTCGGCGTACGGA-GCGGCGGCGAGCGGCTGGGGCTACGACTCGCTGAAGAACTTCCGCCAGATCTCCCCCGCCGTCCAGTCCCACCTCAAGCTCgtacgtttcgtgccccc--ttctccct---cctcccg-cgagtgttttttttttgggattttttttg-ttggggtggatttggttcgcggcgtggcgggtgttgcta
















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:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211089857|gb|FL268124.1|FL268124
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211089853|gb|FL268120.1|FL268120
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211094787|gb|FL268142.1|FL268142
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211092318|gb|FL268133.1|FL268133
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|8367634|gb|BE050579.1|BE050579
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211092323|gb|FL268138.1|FL268138
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211097262|gb|FL268158.1|FL268158
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|37423268|gb|CF649361.1|CF649361
EST:     TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211092321|gb|FL268136.1|FL268136
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211089855|gb|FL268122.1|FL268122
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211097261|gb|FL268157.1|FL268157
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGNCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|149108188|gb|EE292533.2|EE292533
EST:     TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211092325|gb|FL268140.1|FL268140
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211089854|gb|FL268121.1|FL268121
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211089852|gb|FL268119.1|FL268119
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211092315|gb|FL268130.1|FL268130
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211094791|gb|FL268146.1|FL268146
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211094796|gb|FL268151.1|FL268151
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211094799|gb|FL268154.1|FL268154
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211089858|gb|FL268125.1|FL268125
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTNGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|74232623|gb|DT640537.1|DT640537
EST:     TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|8367633|gb|BE050578.1|BE050578
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211094795|gb|FL268150.1|FL268150
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|37417079|gb|CF646193.1|CF646193
EST:     TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|94476340|gb|EB705298.1|EB705298
EST:     TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211097263|gb|FL268159.1|FL268159
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211092324|gb|FL268139.1|FL268139
EST:     TCAAGAACTTCCGCCAGATCACCCCTGC-GTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211092313|gb|FL268128.1|FL268128
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211094800|gb|FL268155.1|FL268155
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211094798|gb|FL268153.1|FL268153
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211092319|gb|FL268134.1|FL268134
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211094794|gb|FL268149.1|FL268149
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|101392580|gb|EB818220.1|EB818220
EST:     TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211097267|gb|FL268163.1|FL268163
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
EST: gi|211092317|gb|FL268132.1|FL268132
EST:     TCAAGAACTTCCGCCAGATCACCCCTGCCGTCCAGACCCACCTCAAGCTC                         GTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC
genomic: TCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccc ... ttgcctgcagGTCTACCTCACCCTGTGCGCGGCGCTGGCCTCGTCGGCGGTGGGCGCTTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCGTCGGCGCCCTACGGCTACGGCGCCGGCGGATGGAGCTACGACTCGCTCAAGAACTTCCGCCAGATCACCCCCGCCGTCCAGACCCACCTCAAGCTCgtacgtcccccgttcgcgattctccctgttcttctcgtcgtgggcgtgcgtttcagaaattccgggggctatagtcgttgtgactcgcgcaattagcatt

- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT