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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaatactgaattcacatgttccagtgagaagtggtgcacttttttctcggcatttcacttggtggaatgtgcaagtaaatatttactcttttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTCAGACGCAATAAGAGCTATCTGCTTCAGTGTGAGTGGAGCTTTGTTTGCT

Basic information

species Zea mays
transcript GRMZM2G131998_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|211048672|gb|FL294333.1|FL294333
EST:     AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAG                         GGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
genomic: AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAGgtttggaaac ... tttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
EST: gi|211051626|gb|FL294345.1|FL294345
EST:     AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAG                         GGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
genomic: AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAGgtttggaaac ... tttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
EST: gi|211051623|gb|FL294342.1|FL294342
EST:     AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAG                         GGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
genomic: AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAGgtttggaaac ... tttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
EST: gi|211048680|gb|FL294341.1|FL294341
EST:     ACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTTGTTTGATCTCAG                         GGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
genomic: ACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCG-TGTTTGATCTCAGgtttggaaac ... tttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
EST: gi|211051624|gb|FL294343.1|FL294343
EST:     AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAG                         GGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
genomic: AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAGgtttggaaac ... tttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
EST: gi|211048669|gb|FL294330.1|FL294330
EST:     AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAG                         GGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
genomic: AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAGgtttggaaac ... tttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
EST: gi|211048668|gb|FL294329.1|FL294329
EST:     AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAG                         GGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
genomic: AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAGgtttggaaac ... tttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
EST: gi|211048676|gb|FL294337.1|FL294337
EST:     AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAG                         GGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGNCATTCTCATTC
genomic: AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAGgtttggaaac ... tttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
EST: gi|211048673|gb|FL294334.1|FL294334
EST:     AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAG                         GGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
genomic: AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAGgtttggaaac ... tttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
EST: gi|211051633|gb|FL294352.1|FL294352
EST:     AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAG                         GGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTTATTC
genomic: AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAGgtttggaaac ... tttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
EST: gi|211051625|gb|FL294344.1|FL294344
EST:     AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAG                         GGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
genomic: AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAGgtttggaaac ... tttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
EST: gi|211048667|gb|FL294328.1|FL294328
EST:     AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAG                         GGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC
genomic: AACTCCGTCGCCGTCGCCATCGGGCCCGAGCTCCGCGTGTTTGATCTCAGgtttggaaac ... tttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcggcatttcacttggtggaatgtgcaagtaaatatttactcttttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTCAGACGCAATAAGAGCTATCTGCTTCAGTGTGAGTGGAGCTTTGTTTGCT
                                   tatttactcttttcct  CT-rich tract
                               taaatatttactcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaatactgaattcacatgttccagtgagaagtggtgcacttttttctcggcatttcacttggtggaatgtgcaagtaaatatttactcttttcctccagGGCTGGTCATCCAGTTTCATTGTCAGATGATTGTGGTGGCCATTCTCATTCAGACGCAATAAGAGCTATCTGCTTCAGTGTGAGTGGAGCTTTGTTTGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT