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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCTGGTGGCCCAAAGATTCCAATGAAATACGGACGAGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtagatctccatggctttgcagtgctctttttccagtaccaatgccctttattagtttgcaggaagagttcagatatcaaagatatacttagagat...

Basic information

species Zea mays
transcript GRMZM2G120517_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G120517_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os04g35520.1 (Oryza sativa), 5'ss of exon 5
GAAGCTGGTGGCCCAAAGATTCCAATGAAATACGGACGAGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtag-----atctccatgg-ctttgcagtgctctttttccagtaccaatgccctttattagtttgcaggaagagttcagatatcaaagatatacttagagat
||||||||||| |||||||||||||||| ||| |||||  ||||||| ||||| ||||||||||| || ||||||||||| ||||| |||||| |       | ||  |||  ||| ||   | ||     | ||||  ||  ||| | || | || |   |  | |     | | ||     |  ||| |  |
GAAGCTGGTGGTCCAAAGATTCCAATGACATATGGACGGATTGATGTCACAGGTCCTGAGCAGTGTCCACCTGAGGGGAAGCTTCCCGgttagcaacttatgtttcactggattttccaaaacactaacatctgtactgatatcctgtctt-gcttacttcataattgttctttttaa-----tttttaaatgt
















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|24934386|gb|CA452604.1|CA452604
EST:     AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTG                         ATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
genomic: AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtagat ... tgttccacagATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
EST: gi|71327463|gb|DR800349.1|DR800349
EST:     AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTG                         ATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
genomic: AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtagat ... tgttccacagATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
EST: gi|67022725|gb|CO451474.1|CO451474
EST:     AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTG                         ATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
genomic: AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtagat ... tgttccacagATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
EST: gi|101393103|gb|EB818482.1|EB818482
EST:     AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTG                         ATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
genomic: AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtagat ... tgttccacagATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
EST: gi|18181579|gb|BM382789.1|BM382789
EST:     AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTG                         ATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
genomic: AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtagat ... tgttccacagATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
EST: gi|60397958|gb|DN230774.1|DN230774
EST:     AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTG                         ATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
genomic: AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtagat ... tgttccacagATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
EST: gi|7238058|gb|AW573325.1|AW573325
EST:     AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTG                         ATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
genomic: AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtagat ... tgttccacagATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
EST: gi|74246091|gb|DT654005.1|DT654005
EST:     AGTTGATGTTACAGGACGTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTG                         ATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
genomic: AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtagat ... tgttccacagATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
EST: gi|88753851|gb|DY537992.1|DY537992
EST:     AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTG                         ATGCTGGCCCAAGTTCACTTGCTGACCACTTGAGGGAGGTATTCTACAGAA
genomic: AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtagat ... tgttccacagATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
EST: gi|7145161|gb|AW506642.1|AW506642
EST:     AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTG                         ATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA
genomic: AGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtagat ... tgttccacagATGCTGGCCCAAGTTCACCTGCTGACCACTTGAGGGAGGTATTCTACAGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGCTGGTGGCCCAAAGATTCCAATGAAATACGGACGAGTTGATGTTACAGGACCTGAGCAGTGCCCCCCTGAGGGGAAACTTCCTGgttagtagatctccatggctttgcagtgctctttttccagtaccaatgccctttattagtttgcaggaagagttcagatatcaaagatatacttagagat

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG