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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atattccttgtagctatttattttacctgcatgtgcaaagttcttacaaatagaattcatgttagaaggtccacactcatgtttgcattatactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAGGAAGAGGCTGCTCTTAGAGCTGGAATAGCAAGGCATGGAGTTGGAAAAT

Basic information

species Zea mays
transcript GRMZM2G095239_T03
intron # 2
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|89761715|gb|DY689620.1|DY689620
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|76917260|gb|DV166735.1|DV166735
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|211312520|gb|FL124164.1|FL124164
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|211314544|gb|FL124174.1|FL124174
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|74242104|gb|DT650018.1|DT650018
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|71441110|gb|DR822160.1|DR822160
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|76287133|gb|DV026701.1|DV026701
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|211312516|gb|FL124160.1|FL124160
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTAAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|78105940|gb|DV524358.1|DV524358
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|211312524|gb|FL124168.1|FL124168
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|50329506|gb|CO524632.1|CO524632
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|74244193|gb|DT652107.1|DT652107
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|74242086|gb|DT650000.1|DT650000
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
EST: gi|76280710|gb|DV020278.1|DV020278
EST:     GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAG                         AGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG
genomic: GGAAGTCCTTTGCGCTTTTGACTGGTCGGGTTGCATAGGCCATTGTTGAGgttagtacca ... tactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaatagaattcatgttagaaggtccacactcatgtttgcattatactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAGGAAGAGGCTGCTCTTAGAGCTGGAATAGCAAGGCATGGAGTTGGAAAAT
 ttcttac  putative branch site (score: 2)
                                         attatact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atattccttgtagctatttattttacctgcatgtgcaaagttcttacaaatagaattcatgttagaaggtccacactcatgtttgcattatactgaccagAGGTGATTTGGCCTAAGAATGGGGGCTCCAAAACAAAGGTGGACTTCTGAGGAAGAGGCTGCTCTTAGAGCTGGAATAGCAAGGCATGGAGTTGGAAAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA