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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAATGTTCAGATCTGGAGAAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatatgcgtgttctatcatagtttatggcggtgaaatcagattacattgattgactcccagttgtatcgttctgcacgccgccgcgcgcag

Basic information

species Zea mays
transcript GRMZM2G057412_T03
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G057412_T04 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os03g33590.2 (Oryza sativa), 5'ss of exon 12
AAAATGTTCAGATCTGGAGAAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatatgcgtgttctatcatagtttatggcggtgaaatcagatta-cattgattgactcccagttgtatcgttctgcacgccgccgcgcgcag--------
||||| |  || |||||||||||||||||||||||||| ||||||||||| ||||||||| |||| || || || |||  ||||   ||| ||   || ||    ||   ||| | |  ||  |    | |||   |  | |  |||| || |||       | ||        
AAAATCTATAGGTCTGGAGAAGAGAAAGGAAGAGCTCTAAAGTTGAATAAGGAGCGTCGTTTAGCCCAAgtaag-ataaacgtgcaatattatccattttgtttttgt--tcacactggcagagtgcaaatccacttgatgttattcttca-gcc-ttattagtagttgtggga
















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|74240130|gb|DT648044.1|DT648044
EST:     AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|93281097|gb|EB673361.1|EB673361
EST:     AAGAGAAAGGAAGAGCTTTGAAGTTGAATAAAGAGCGTCGTTTAGCTCAG                         GAGAGGAAGCAGCAGAATATTTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|149102607|gb|EE287965.2|EE287965
EST:     AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|33467969|gb|CF245018.1|CF245018
EST:     AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|60336988|gb|DN203961.1|DN203961
EST:     AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|76909352|gb|DV163342.1|DV163342
EST:     AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|211386247|gb|FL227579.1|FL227579
EST:     AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|74242217|gb|DT650131.1|DT650131
EST:     AAGAGAAAGGAAGAGCTTTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|60347261|gb|DN214234.1|DN214234
EST:     AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|89759386|gb|DY688239.1|DY688239
EST:     AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTTTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|86466198|gb|DY232571.1|DY232571
EST:     AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|211131389|gb|FL432622.1|FL432622
EST:     AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTTGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|60354297|gb|DN221270.1|DN221270
EST:     AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|89249172|gb|DY620958.1|DY620958
EST:     AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
EST: gi|211131390|gb|FL432623.1|FL432623
EST:     AAGAGAAAGGAAGAGCTTTGAAGTTGAATAAAGAGCGTTGTCTAGCTCAG                         GAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC
genomic: AAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatat ... ccgcgcgcagGAGAGGAAGCAGCAGAATATCTTGAACGAGCAATATGGATAGAACCTACCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAATGTTCAGATCTGGAGAAGAGAAAGGAAGAGCTCTGAAGTTGAATAAAGAGCGTCGTCTAGCTCAGgtgagcatatgcgtgttctatcatagtttatggcggtgaaatcagattacattgattgactcccagttgtatcgttctgcacgccgccgcgcgcag

- - - - - - - - -  AAGAGA
- - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA