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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAACTTGAGTATAGCGATGATGTCTGTGGTGTTGTGCTTAGTGTCCGTTTCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgacagcacatgatgctgctaagatatggtgttgaggctgtgttactcattcatgcccttttgccgttcag

Basic information

species Zea mays
transcript GRMZM2G048703_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G048703_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os03g15590.1 (Oryza sativa), 5'ss of exon 5
CCAACTTGAGTATAGCGATGATGTCTGTGGTGTTGTGCTTAGTGTCCGTTTCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgacagcacatgatgctgcta-agatatggtgttgaggctgtg-----ttactcattcatgcccttttgccgttcag
 |||||||| ||||| |||||||| ||||| ||||| || ||||| ||||||||||| |||||||| || ||||||||||| || ||||| ||||| |||||  | |||| ||||  ||||| | | || |||  ||||    || |       |||||| |      ||| || ||| |||
TCAACTTGATTATAGTGATGATGTTTGTGGCGTTGTACTCAGTGTTCGTTTCAATGAGGACATTCTAAGTGTCTGGAACCGTAATGCATCTGACCACCAGgtttgggacaacaca-aatgctacaatagctattatgtttgaactctagacttgtactcactttctttcttctgtcgtgcag
















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|89760551|gb|DY688915.1|DY688915
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|16917882|gb|BM073472.1|BM073472
EST:     TCAATGAAGACATTTTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCCCCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|211119484|gb|FK964938.1|FK964938
EST:     CAATGAAGACATTCTGAGCGTCTGGAACCCGGA-CGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATCAAGAGGCACCTCAAGCTTGCG-CA
genomic: CAATGAAGACATTCTGAGCGTCTGGAACC-GGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCT-GCCACA
EST: gi|148936054|gb|EC880114.2|EC880114
EST:     TCAATGAAGACATTCTGAGCGTCTGGGACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAAGCACCTCCAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|87153049|gb|DY397838.1|DY397838
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|6342628|gb|AW165452.1|AW165452
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATCAAGAGGCACCTCAAGCTGCCGCAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|6445424|gb|AW179492.1|AW179492
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTG-GATGGCATTGAGG-ATTCT
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCT
EST: gi|18180251|gb|BM381461.1|BM381461
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|74232667|gb|DT640581.1|DT640581
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|28361610|gb|CB239966.1|CB239966
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGGAGGGATTCTATAAAGAGGCACCTCAAGCT
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTG-AGGGATTCTATAAAGAGGCACCTCAAGCT
EST: gi|93012199|gb|EB637719.1|EB637719
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|211254818|gb|FK964953.1|FK964953
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAANGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|31612425|gb|CD569047.1|CD569047
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|71327672|gb|DR800450.1|DR800450
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATCAAGAGGCACCTCAAGCTGCCGCAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|91053786|gb|EB164204.1|EB164204
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|14245305|gb|BG873887.1|BG873887
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|74232666|gb|DT640580.1|DT640580
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|19058335|gb|BM737002.1|BM737002
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|113647698|gb|DW805654.1|DW805654
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATCCTATAAAGAGGCACCTCAAG
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAG
EST: gi|60351308|gb|DN218281.1|DN218281
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATCAAGAGGCACCTCAAGCTGCCGCAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|5499467|gb|AI855334.1|AI855334
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCCCCTCAAGCTGCCCCCC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|78088649|gb|DV517042.1|DV517042
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|211254822|gb|FK964957.1|FK964957
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCCTCA-GCTGCCACA
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACC-TCAAGCTGCCACA
EST: gi|78088650|gb|DV517043.1|DV517043
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|211119477|gb|FK964931.1|FK964931
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|31349975|gb|CD434332.1|CD434332
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCACACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATCAAGAGGCACCTCAAGCTGCCGCAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|28361792|gb|CB240148.1|CB240148
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|15199121|gb|BI423668.1|BI423668
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATCAAGAGGCACCTCAAGCTGCCGCAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|149070116|gb|EE158515.2|EE158515
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|89760553|gb|DY688916.1|DY688916
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|149005273|gb|EE039821.2|EE039821
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATCAAGAGGCACCTCAAGCTGCCGCAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|32834070|gb|CD973748.1|CD973748
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATCAAGAGGCACCTCAAGCTGCCGCAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
EST: gi|22490736|gb|BU050659.1|BU050659
EST:     TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAG                         GCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC
genomic: TCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgaca ... tgccgttcagGCTGTGATGGCATTGAGGGATTCTATAAAGAGGCACCTCAAGCTGCCACAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCAACTTGAGTATAGCGATGATGTCTGTGGTGTTGTGCTTAGTGTCCGTTTCAATGAAGACATTCTGAGCGTCTGGAACCGGAACGCATCAGACCATCAGgtaagtgacagcacatgatgctgctaagatatggtgttgaggctgtgttactcattcatgcccttttgccgttcag

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