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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACCCCATGTATCACGGACTGTGTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcctatccaatgctgttcccacattgtgttatttaatgtcttcttttggctttatctgcttcattgtctcaaatagaggttagattagtttttt...

Basic information

species Zea mays
transcript GRMZM2G140689_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G140689_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os06g06410.1 (Oryza sativa), 5'ss of exon 5
GTACCCCATGTATCACGGACTGTGTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcctatccaatgctgttcccacattgtgttatttaatgtcttcttttggctttatctgcttca-ttgtctcaaat--agaggttagattagtttttt
| || |||||||||||||| ||||||||||| ||||||||||||||||| || ||||||||||| || ||||||| || || |  |||||    || |     |   ||  || |||  ||   ||   ||||| | ||||| ||||  |||||   |   ||   |  |||| | 
GCACACCATGTATCACGGATTGTGTTATGGCGGAGCTTGAAAAGCTGGGACAAAAGTATCGTGTAGCATTGAGgtatgttcattcccaata--attactgtggta-attggttcatgcatttcctttaatttatattcttcacttgttgcaaattccgttattcattctgtttctc

upper sequence: GRMZM2G140689_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT1G26530.1 (Arabidopsis thaliana), 5'ss of exon 5
GTACCCCATGTATCACGGACTGTGTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcctatccaatgctgttcccacattgtgttatttaat-gtcttcttttggctttatctgct-tcattgtctcaaatagaggttagattagtttttt
| || || ||||| ||||||||||| ||||||||||| || ||| | || |||||||||||||| ||  ||||||       | |          | | |    | ||| || | | |  || | |    ||| ||   | | | |   | |  |  |  || | ||||      
GCACTCCTTGTATTACGGACTgtgtcatggctgagctggagaagttaggtcagaagtatcgtgtagctctgaggtaaagctttttg-------acttcaaagaagagtttttcagtagaattgtatcatttttgtcgattcttaataagttacttttatatttggttag------
















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|31352269|gb|CD436626.1|CD436626
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|71445647|gb|DR826697.1|DR826697
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|88754303|gb|DY538444.1|DY538444
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|93013575|gb|EB639095.1|EB639095
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|88746998|gb|DY531139.1|DY531139
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|74236372|gb|DT644286.1|DT644286
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|76021687|gb|DT948857.1|DT948857
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|19770099|gb|BQ034820.1|BQ034820
EST:     CTGAGCTTGAAAAGCTGGGGCAGAAGTATCG-GTGGNCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAA
genomic: CTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGG-CCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAA
EST: gi|50326783|gb|CO521909.1|CO521909
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|74245266|gb|DT653180.1|DT653180
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|211295565|gb|FL447041.1|FL447041
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|50332974|gb|CO528100.1|CO528100
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|89247134|gb|DY618920.1|DY618920
EST:     GTTATGACTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|211091999|gb|FL476412.1|FL476412
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|93011681|gb|EB637201.1|EB637201
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|74239821|gb|DT647735.1|DT647735
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|213173441|gb|FM193835.1|FM193835
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|76018425|gb|DT945595.1|DT945595
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|19769624|gb|BQ034345.1|BQ034345
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|50326824|gb|CO521950.1|CO521950
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|78025632|gb|DV494019.1|DV494019
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|33468200|gb|CF245249.1|CF245249
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|78077064|gb|DV505498.1|DV505498
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|76292363|gb|DV031931.1|DV031931
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
EST: gi|5688786|gb|AI941801.1|AI941801
EST:     GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAG                         AATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC
genomic: GTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcct ... tccctcacagAATTGCCAAGGACCCTAGGTTCCAAAGATTAGCATGCACACACAAGGGAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTACCCCATGTATCACGGACTGTGTTATGGCTGAGCTTGAAAAGCTGGGGCAGAAGTATCGTGTGGCCTTGAGgtgtgctcctatccaatgctgttcccacattgtgttatttaatgtcttcttttggctttatctgcttcattgtctcaaatagaggttagattagtttttt

- - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT