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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCATATTCATCTTTTTCCTCGTCCTTCTCCCCGATACAACCATGGTTATTTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAACgtaagttgcacatctcatcttgtatctcaaaatttctcaatatcatggtacttatgttcgtattttttcttgcaatttgtttgctcacag

Basic information

species Zea mays
transcript GRMZM5G896731_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G896731_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g22610.1 (Oryza sativa), 5'ss of exon 2
ATCATATTCATCTTTTTCCTCGTCCTTCTCCCCGATACAACCATGGTTATTTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAACgtaagttgcacatctcatcttgtatctcaaaatttctcaatatcatggtacttatgttcgtattttttcttgcaatttgtttgctcacag
 ||||  || || | ||| ||||| | ||||  |||| | |||||| | ||||| ||||| ||||||||||||||||||||||||| |||||| ||||| ||||| |   ||||||||  | | |||     |   | | | |||   | | ||||      |||||   ||||                
CTCATTATCTTCATCTTCTTCGTCATGCTCCGTGATAAATCCATGGCTCTTTGTTGGTCTCGGCAACCCTGGTGAGAAGTATCAATGCACCAGACACAATgtaagctttgcatctcattct-tgtcttgg--tcatttattttcagaat-cctatgacaccctttttcgctgcag---------------
















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|71438321|gb|DR819371.1|DR819371
EST:     TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAAC                         GTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
genomic: TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAACgtaagttgca ... ttgctcacagGTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
EST: gi|89248113|gb|DY619899.1|DY619899
EST:     TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAAC                         GTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
genomic: TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAACgtaagttgca ... ttgctcacagGTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
EST: gi|78109136|gb|DV527553.1|DV527553
EST:     TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAAC                         GTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
genomic: TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAACgtaagttgca ... ttgctcacagGTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
EST: gi|88756830|gb|DY540971.1|DY540971
EST:     TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAAC                         GTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
genomic: TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAACgtaagttgca ... ttgctcacagGTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
EST: gi|89250808|gb|DY622594.1|DY622594
EST:     TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAAC                         GTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
genomic: TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAACgtaagttgca ... ttgctcacagGTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
EST: gi|91050003|gb|EB160421.1|EB160421
EST:     TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAAC                         GTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
genomic: TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAACgtaagttgca ... ttgctcacagGTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
EST: gi|76293027|gb|DV032595.1|DV032595
EST:     TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAAC                         GTGAGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
genomic: TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAACgtaagttgca ... ttgctcacagGTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
EST: gi|91053266|gb|EB163684.1|EB163684
EST:     TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAAC                         GTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
genomic: TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAACgtaagttgca ... ttgctcacagGTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
EST: gi|211387371|gb|FL162620.1|FL162620
EST:     GTGGGTCATGGNCA-CCCTGGTGAGAATGTATCA-TC-ACCAGGCACAAC                         GTGGGTTTTGATA-GATAGATGCATTTGCGCCATCCCAGGGTATACCCCTG
genomic: GTGGGTCTTGG-CAACCCTGGTGAGAA-GTATCAATCCACCAGGCACAACgtaagttgca ... ttgctcacagGTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
EST: gi|78085320|gb|DV513713.1|DV513713
EST:     TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAAC                         GTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG
genomic: TTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAACgtaagttgca ... ttgctcacagGTGGGTTTTGATATGATAGATGCATTTGCGCAATCCCAGGGTATACCCCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCATATTCATCTTTTTCCTCGTCCTTCTCCCCGATACAACCATGGTTATTTGTGGGTCTTGGCAACCCTGGTGAGAAGTATCAATCCACCAGGCACAACgtaagttgcacatctcatcttgtatctcaaaatttctcaatatcatggtacttatgttcgtattttttcttgcaatttgtttgctcacag

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