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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctgtcacattaattaaacattttttgtgtttctttttatacctttttttttctttccctttttctctataagtatctgactctgcttctgctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG

Basic information

species Zea mays
transcript GRMZM2G130230_T03
intron # 8
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|211483716|gb|FL115161.1|FL115161
EST:     AGGGAAGACTTTGGTACTGAAGGGCGTGGASGATATTTTGACCAATATGG                         AATCATTCGTGATATCATTCAGAATCATTTACTGCAG
genomic: AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGGgtatgtacaa ... gctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG
EST: gi|67037531|gb|CO464345.1|CO464345
EST:     AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGG                         AATCATTCGAGATATCATTCAGAATCATTTACTGCAG
genomic: AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGGgtatgtacaa ... gctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG
EST: gi|6194863|gb|AW146967.1|AW146967
EST:     AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGG                         AATCATTCGAGATATCATTCAGAATCATTTACTGCAG
genomic: AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGGgtatgtacaa ... gctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG
EST: gi|211483712|gb|FL115157.1|FL115157
EST:     AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGG                         AATCATTCGTGATATCATTCAGAATCATTTACTGCAG
genomic: AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGGgtatgtacaa ... gctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG
EST: gi|211483710|gb|FL115155.1|FL115155
EST:     AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGG                         AATCATTCGTGATATCATTCAGAATCATTTACTGCAG
genomic: AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGGgtatgtacaa ... gctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG
EST: gi|71447340|gb|DR828390.1|DR828390
EST:     AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACAAATATGG                         AATCATTCGTGATATCATTCAGAATCATTTACTGCAG
genomic: AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGGgtatgtacaa ... gctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG
EST: gi|605736|gb|T27548.1|T27548
EST:     CGTGGAGGATATTTTGACCAATATGG                         AATCATTCGTGATATCATTCAGAATCATTTACTGCAG
genomic: CGTGGAGGATATTTTGACCAATATGGgtatgtacaa ... gctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG
EST: gi|211483711|gb|FL115156.1|FL115156
EST:     AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGG                         AATCATTCGTGATATCATTCAGAATCATTTACTGCAG
genomic: AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGGgtatgtacaa ... gctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG
EST: gi|211483713|gb|FL115158.1|FL115158
EST:     AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGG                         AATCATTCGTGATATCATTCAGAATCATTTACTGCAG
genomic: AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGGgtatgtacaa ... gctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG
EST: gi|211483714|gb|FL115159.1|FL115159
EST:     AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGG                         AATCATTCGTGATATCATTCAGAATCATTTACTGCAG
genomic: AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGGgtatgtacaa ... gctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG
EST: gi|33103286|gb|CF063246.1|CF063246
EST:     ACTGAAGGGCGTGGAGGATATTTTGACCAATATGG                         AATCATTCGAGATATCATTCAGAATCATTTACTGCAG
genomic: ACTGAAGGGCGTGGAGGATATTTTGACCAATATGGgtatgtacaa ... gctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG
EST: gi|78109778|gb|DV528194.1|DV528194
EST:     AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGG                         AATCATTCGTGATATCATTCAGAATCATTTACT
genomic: AGGGAAGACTTTGGTACTGAAGGGCGTGGAGGATATTTTGACCAATATGGgtatgtacaa ... gctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttctttccctttttctctataagtatctgactctgcttctgctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG
                             atctgac  putative branch site (score: 3)
                                        cttctgct  putative PPT
                      tataagtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctgtcacattaattaaacattttttgtgtttctttttatacctttttttttctttccctttttctctataagtatctgactctgcttctgctgttgcagAATCATTCGTGATATCATTCAGAATCATTTACTGCAG

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