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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataacaagtacaaggagtattggatctaactatcccagtagcttccctttacaatctttattcttgaagatggtttaagtccatgggttttttatttcagCACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGATTTTTCTTCTGCTTGTGGTATGCGTCAAAGAAGCATTGGCTTGCAAATAA

Basic information

species Zea mays
transcript GRMZM2G150251_T01
intron # 5
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|33092200|gb|CF052194.1|CF052194
EST:     TCTGGCGTGCTCCACTTTTCCACT                         CACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
genomic: TCTGGCGTGCTCCACTTTTCCACTgtatgatccc ... tttatttcagCACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
EST: gi|33093608|gb|CF053602.1|CF053602
EST:     TCTGGCGTGCTCCACTTTTCCACT                         CACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
genomic: TCTGGCGTGCTCCACTTTTCCACTgtatgatccc ... tttatttcagCACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
EST: gi|78123105|gb|DV541489.1|DV541489
EST:     AAAAGAGTGAAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCTCT                         CACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
genomic: AAAAGAGTGGAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCACTgtatgatccc ... tttatttcagCACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
EST: gi|93282675|gb|EB674939.1|EB674939
EST:     AAAAGAGTGGAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCACT                         CACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
genomic: AAAAGAGTGGAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCACTgtatgatccc ... tttatttcagCACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
EST: gi|60353103|gb|DN220076.1|DN220076
EST:     AAAAGAGTGGAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCACT                         CACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
genomic: AAAAGAGTGGAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCACTgtatgatccc ... tttatttcagCACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
EST: gi|32837706|gb|CD977384.1|CD977384
EST:     AAAAGAGTGGAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCACT                         CACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
genomic: AAAAGAGTGGAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCACTgtatgatccc ... tttatttcagCACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
EST: gi|76020573|gb|DT947743.1|DT947743
EST:     AAAAGAGTGGAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCACT                         CACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
genomic: AAAAGAGTGGAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCACTgtatgatccc ... tttatttcagCACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
EST: gi|60349110|gb|DN216083.1|DN216083
EST:     AAAAGAGTGGAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCACT                         CACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
genomic: AAAAGAGTGGAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCACTgtatgatccc ... tttatttcagCACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
EST: gi|76282341|gb|DV021909.1|DV021909
EST:     AAAAGAGTGGAATGATAATCTCATTGTCTGGTGTGCTCCACTTTTCCACT                         CACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT
genomic: AAAAGAGTGGAATGATAATCTCATTGTCTGGCGTGCTCCACTTTTCCACTgtatgatccc ... tttatttcagCACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctttacaatctttattcttgaagatggtttaagtccatgggttttttatttcagCACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGATTTTTCTTCTGCTTGTGGTATGCGTCAAAGAAGCATTGGCTTGCAAATAA
                                          ttttttatttc  CT-rich tract
                                          ttttttatttca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataacaagtacaaggagtattggatctaactatcccagtagcttccctttacaatctttattcttgaagatggtttaagtccatgggttttttatttcagCACTCTCGGTGGAGTTCACAAAGTCCCAGATTGTTGCTTCAATACCTGGATTTTTCTTCTGCTTGTGGTATGCGTCAAAGAAGCATTGGCTTGCAAATAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC