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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAGGAGGATCGGGTGATGGAGAATGATGATGGCGGTAATCCTGCTTTGCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgcctttcgaatgtgctgactaatcggttgtttcaaatatgcccgcagaagccaaagcttgtctctggttcgctatcaaaacaaaagagagggagag...

Basic information

species Zea mays
transcript GRMZM2G151268_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G151268_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os12g01170.1 (Oryza sativa), 5'ss of exon 2
GAAGAGGAGGATCGGGTGATGGAGAATGATGATGGCGGTAATCCTGCTTTGCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgcctt-tcgaatgtgctgactaatcggttgtttcaaatatgcccgcagaagccaaagcttgtctctggttcgctatcaaaacaaaagagagggagag
|||||||||||| ||||  |||||||||||||||| || ||||| ||||||||||||||||| |||||||| |||||||| |||||||||||||| ||||||||||||| |    |   | ||      | |||||||  ||    |  || ||   |    |    | ||  |   | || | |          ||||| 
GAAGAGGAGGATAGGGTAGTGGAGAATGATGATGGTGGGAATCCCGCTTTGCTTGGTAGCTGCAATGACCGAGCTAAGCAGCTGCATGCTTCACCATCAGgtttgccttcttttctacccagaagttcagattgtttcccatgctgcttcaaaaataatttatctcatatgtatgattctctagattccttttttggaga-
















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|211533622|gb|FL412539.1|FL412539
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCKAATACTTGGAGTGGGCGCAATTWA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|9028689|gb|BE238729.1|BE238729
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGGTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|211029306|gb|FL370361.1|FL370361
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|29945213|gb|CB815527.1|CB815527
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|211511056|gb|FL378831.1|FL378831
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|211355840|gb|FL403701.1|FL403701
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|211317656|gb|FL416767.1|FL416767
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|211533628|gb|FL412545.1|FL412545
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|211156585|gb|FL395419.1|FL395419
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|211036668|gb|FL370397.1|FL370397
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|211254949|gb|FL427088.1|FL427088
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|9952754|gb|BE639217.1|BE639217
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|211163025|gb|FL401335.1|FL401335
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|211076740|gb|FL399053.1|FL399053
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
EST: gi|211537120|gb|FL426924.1|FL426924
EST:     GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAG                         GTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA
genomic: GCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgccttt ... ttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGAGGAGGATCGGGTGATGGAGAATGATGATGGCGGTAATCCTGCTTTGCTTGGTAGCTGTAATGACCGGGCTAAGCAACTGCATGCTTCACCTTCAGgtttgcctttcgaatgtgctgactaatcggttgtttcaaatatgcccgcagaagccaaagcttgtctctggttcgctatcaaaacaaaagagagggagag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA