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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacacttcagtggcctgtttgatatgatgtaacatcattgtcatggaatgttcttggctaacataacatactcaattatcagatcctgaattgaaacaccatgtttgtttttatttgatgaatgatgtcgcttattgctatactgtgcaaagtttaccactatggcgctaaccgcgttgtttatgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTTACTACATCAGCTGGCCCATGTAGATCTTCGATTCACAACGGAAATGTTA

Basic information

species Zea mays
transcript GRMZM2G166345_T02
intron # 10
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|18173735|gb|BM349123.1|BM349123
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|32913187|gb|CF017999.1|CF017999
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|31363989|gb|CD448344.1|CD448344
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|213173994|gb|FM188956.1|FM188956
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|32863847|gb|CF003529.1|CF003529
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGGTTCCCTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTG-TTCCCTT
EST: gi|149110254|gb|EE294046.2|EE294046
EST:     CTGAAGATGTTTTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATTTTTGTACCGACGAGAATGGAATTGCAATGTTCAAAGGT-TTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|211207476|gb|FL411825.1|FL411825
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|4874363|gb|AI673883.1|AI673883
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|4573130|gb|AI586779.1|AI586779
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTCCCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|83279363|gb|DV943371.1|DV943371
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|91874366|gb|EB404323.1|EB404323
EST:     CTGAAGATGTTTTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTTGTTCCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|91873662|gb|EB403619.1|EB403619
EST:     CTGAAGATGTTTTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTTGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|71772536|gb|DR970467.1|DR970467
EST:     CAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|33098108|gb|CF058068.1|CF058068
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|211244774|gb|FL481676.1|FL481676
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|12972445|gb|BG267985.1|BG267985
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATGCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCAT-CTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTT
EST: gi|4628469|gb|AI619343.1|AI619343
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|211217164|gb|FL385248.1|FL385248
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|213173188|gb|FM191133.1|FM191133
EST:     CTGAAGATGTTCTGAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|32863787|gb|CF003469.1|CF003469
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|37381901|gb|CF627857.1|CF627857
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|32849223|gb|CD988904.1|CD988904
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|88756566|gb|DY540707.1|DY540707
EST:     CTGAAGATGTTTTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATTTTTGTTCCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|71758158|gb|DR956095.1|DR956095
EST:     CTGAAGATGTTTTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTTGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|33095762|gb|CF055756.1|CF055756
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|93280898|gb|EB673162.1|EB673162
EST:     CTGAAGATGTTTTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTTGTTCCGGCGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|211105793|gb|FL432184.1|FL432184
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|91053825|gb|EB164243.1|EB164243
EST:     CTGAAGATGTTTTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|5005650|gb|AI711712.1|AI711712
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|211165085|gb|FL207333.1|FL207333
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|76286900|gb|DV026468.1|DV026468
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|17931240|gb|BM268200.1|BM268200
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
EST: gi|78112559|gb|DV530953.1|DV530953
EST:     CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCG                         CATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT
genomic: CTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGgtacacttca ... atgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatactgtgcaaagtttaccactatggcgctaaccgcgttgtttatgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTTACTACATCAGCTGGCCCATGTAGATCTTCGATTCACAACGGAAATGTTA
                            cgctaac  putative branch site (score: 2)
           aaagttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacacttcagtggcctgtttgatatgatgtaacatcattgtcatggaatgttcttggctaacataacatactcaattatcagatcctgaattgaaacaccatgtttgtttttatttgatgaatgatgtcgcttattgctatactgtgcaaagtttaccactatggcgctaaccgcgttgtttatgcatccagCATCTTCGTACCGACGAGAATGGAATTGCAATGTTCAAAGGTGTTCCCTTTACTACATCAGCTGGCCCATGTAGATCTTCGATTCACAACGGAAATGTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG