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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccagctttcagttttccagtttgtggctgctatcccaagaaacaactgtgattctctgattctgaactaactgttcaatatctgcatatctgcag

Basic information

species Zea mays
transcript GRMZM2G070315_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G070315_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os06g10650.1 (Oryza sativa), 5'ss of exon 4
ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaag----accagctttca------gttttccagtttgtggctgctatcccaagaaacaactgtgattctctgattctgaactaactg-ttcaatatctgcatatctgcag
||  || |||||||||||||||||| || ||||||||||||||||||||    | ||| |  ||        | | || || |  ||   ||||     || |||     | |||  ||| || |||| |||| | |||| | | | ||||| |||
ACGTAAAAAACCAACCTCTGCTTATTCACTGCAAGAGAGGCAAGgtaagcttaatcagttcccacactaaactctgcaatt-gctgccattatcttccaaagcaag---aactctgagatcctaaactgactgctccaatgtttccctatcttcag
















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|32925414|gb|CF030226.1|CF030226
EST:     ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAG                         CACCGAACTGGCTGTGTGGTCGGGTGCTTGAGGAAGCTGCAGGAATGGTGC
genomic: ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccag ... atatctgcagCACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
EST: gi|149028367|gb|EE286122.2|EE286122
EST:     ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAG                         CACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
genomic: ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccag ... atatctgcagCACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
EST: gi|148939874|gb|EC884586.2|EC884586
EST:     ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAG                         CACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
genomic: ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccag ... atatctgcagCACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
EST: gi|89758678|gb|DY687773.1|DY687773
EST:     ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAG                         CACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
genomic: ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccag ... atatctgcagCACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
EST: gi|211209829|gb|FK949987.1|FK949987
EST:     ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAG                         CACCGAACTGGCTGTGTGGTCGGGTGCTTGAGGAAGCTGCAGGAATGGTGC
genomic: ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccag ... atatctgcagCACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
EST: gi|148937447|gb|EC881628.2|EC881628
EST:     ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAG                         CACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
genomic: ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccag ... atatctgcagCACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
EST: gi|148940906|gb|EC885740.2|EC885740
EST:     ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAG                         CACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
genomic: ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccag ... atatctgcagCACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
EST: gi|149028366|gb|EE154635.2|EE154635
EST:     ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAG                         CACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
genomic: ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccag ... atatctgcagCACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
EST: gi|89249010|gb|DY620796.1|DY620796
EST:     ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAG                         CACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
genomic: ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccag ... atatctgcagCACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
EST: gi|149083277|gb|EE172563.2|EE172563
EST:     ACCCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAG                         CACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAACTGCAGGAATGGTGC
genomic: ACCC-AAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccag ... atatctgcagCACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
EST: gi|76290784|gb|DV030352.1|DV030352
EST:     ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAG                         CACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC
genomic: ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccag ... atatctgcagCACCGAACTGGCTGTGTGGTCGGATGCTTGAGGAAGCTGCAGGAATGGTGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCCAAGAAACCAACCTCTGCTTATCCATTGCAAGAGAGGCAAGgtaagaccagctttcagttttccagtttgtggctgctatcccaagaaacaactgtgattctctgattctgaactaactgttcaatatctgcatatctgcag

- - AAGAAA
- - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - GAGAGG