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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgaccttaaatgattttcagtactaagtttaccaatgtgttttgcaagctgcacataacatggaatatttttacattctaggatttctgttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAAGTCACACAATGAAAGTTTACTTGCCAGAGTGTAACCTG

Basic information

species Zea mays
transcript GRMZM2G151268_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G151268_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g01170.1 (Oryza sativa), 3'ss of exon 2
ctgacctta--aatgattt-tcagtactaagtttaccaatgtgttttgcaagctgcacataacatggaatatttttacattctaggatttctgttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAAGTCACACAATGAAAGTTTACTTGCCAGAGTGTAACCTG
   | | |    ||||||  | |||  |    || |   | || |    |   |   | |    |  |||   ||||| |   |   |||||  ||||  ||||||||||| |||| ||||||||  | ||||||||||||||||| ||  |||||||||| |||||||||||  |||| || ||||| |||
---atcctgctgatgattagttagtctttgcctttcatttctgctgcatagtttcttcttcggttataattgatttacgtcgaacattttctactgctctcagGTAGGTTATTAACAGCACTTGTAAGTGAATACTTGGAGTGGGCCCAGCTAAGTCACACGATGAAAGTTTATCTGCCTGAATGTAATCTG
















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


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caagctgcacataacatggaatatttttacattctaggatttctgttgcttgcagGTAGGTTACTAACTGCACTTGTTTGCGAATACTTGGAGTGGGCGCAATTAAGTCACACAATGAAAGTTTACTTGCCAGAGTGTAACCTG
        acataac  putative branch site (score: 3)
                                       tttctgtt  putative PPT
                   aatatttttacattct  TA-rich tract