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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatcctcctgctccccagtccttcgcatgtctgaagcccccaacctcattcctactccatctcctccccctcctttgcccgtcccccttcttcgcactcacttttttctctgctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACGCCGCTGCAGTGCCGAATCCCCCAGCCTCTAGTGGCTGCCCCGCGATGAA

Basic information

species Zea mays
transcript GRMZM2G128080_T02
intron # 1
splice site 3'
intron type U2

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|6626347|gb|AW257879.1|AW257879
EST:     CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCG                         CTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCTCAGACG
genomic: CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCGgtaaaatcct ... ctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
EST: gi|149042519|gb|EE047203.2|EE047203
EST:     CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCG                         CTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
genomic: CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCGgtaaaatcct ... ctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
EST: gi|101382451|gb|EB813281.1|EB813281
EST:     CGCCCCAGCAATCCG                         CTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
genomic: CGCCCCAGCAATCCGgtaaaatcct ... ctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
EST: gi|148938451|gb|EC882769.2|EC882769
EST:     CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCG                         CTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
genomic: CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCGgtaaaatcct ... ctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
EST: gi|211362118|gb|FL332260.1|FL332260
EST:     CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCG                         CTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
genomic: CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCGgtaaaatcct ... ctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
EST: gi|211185838|gb|FL326885.1|FL326885
EST:     GCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCG                         CTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
genomic: GCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCGgtaaaatcct ... ctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
EST: gi|211134103|gb|FL315808.1|FL315808
EST:     CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCG                         CTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
genomic: CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCGgtaaaatcct ... ctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
EST: gi|211314481|gb|FL348235.1|FL348235
EST:     CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCG                         CTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
genomic: CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCGgtaaaatcct ... ctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
EST: gi|211477295|gb|FL319648.1|FL319648
EST:     CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCG                         CTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
genomic: CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCGgtaaaatcct ... ctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
EST: gi|211439800|gb|FL306622.1|FL306622
EST:     CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCG                         CTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
genomic: CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCGgtaaaatcct ... ctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG
EST: gi|15499422|gb|BI595935.1|BI595935
EST:     CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCG                         CTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCTCAGACG
genomic: CCACCTGCGCTTCGCCTCCTTCCTCTCAATGGCGGCGCCCCAGCAATCCGgtaaaatcct ... ctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccctcctttgcccgtcccccttcttcgcactcacttttttctctgctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACGCCGCTGCAGTGCCGAATCCCCCAGCCTCTAGTGGCTGCCCCGCGATGAA
                           cactcac  putative branch site (score: 2)
              tcccccttcttcgcac  CT-rich tract
                                actttttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaatcctcctgctccccagtccttcgcatgtctgaagcccccaacctcattcctactccatctcctccccctcctttgcccgtcccccttcttcgcactcacttttttctctgctctttccagCTCCCCTGTCCGGGTCGGCGCCCAAGAGGCTCAGGGCGATGGCCACAGACGCCGCTGCAGTGCCGAATCCCCCAGCCTCTAGTGGCTGCCCCGCGATGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG