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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagtatgtttcgaaccacctcggtttttataaaccagtttcttaaaaactgggtgcttccaaataggcctttaatgaagttcttttctaataaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGGCTTTGGGATGTTGTGGAAAATGAG

Basic information

species Zea mays
transcript GRMZM2G442404_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G442404_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g15594.1 (Oryza sativa), 3'ss of exon 6
tagtatgtttcgaaccacctcggtttttataaaccagtttcttaaaaa--ctgggtgcttccaaataggcctttaatgaagttc------ttttctaataaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGGCTTTGGGATGTTGTGGAAAATGAG
        ||| |     |||  ||| ||| |  |   | ||  | ||  |||       ||| ||||    |   ||||| |       | |  ||| ||| | ||||||||||   ||| ||| ||  |||||||||| ||||| ||||| || || ||||||||||| ||||||||||||
------agttcaacttgtctc--tttgtatgactcctctgctgtataattctgatcatgaccatatagcttgtgtgtgaagcttgattaatgtcttaagaaattacagGAAGAACTTGTCAATGAAGACTTGGAATGCCTCGTTCTTGCTAGCGATGGACTTTGGGATGTCGTGGAAAATGAG
















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|78179208|gb|DV549581.1|DV549581
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACG
EST: gi|37398527|gb|CF636579.1|CF636579
EST:     TGTGTTGGGGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|4776156|gb|AI665159.1|AI665159
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|211024205|gb|FL472254.1|FL472254
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|32863266|gb|CF002948.1|CF002948
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|32925505|gb|CF030317.1|CF030317
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|148973759|gb|EE024892.2|EE024892
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACGTGAAATTCAG                         GAAGAACAGTTCAGGGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|71307033|gb|DR789670.1|DR789670
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|111188864|gb|EE287000.1|EE287000
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|71428856|gb|DR809906.1|DR809906
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|211366188|gb|FL288085.1|FL288085
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|149051712|gb|EE155827.2|EE155827
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|148950086|gb|EC895621.2|EC895621
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|37374878|gb|CF623839.1|CF623839
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|60343417|gb|DN210390.1|DN210390
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|71317759|gb|DR795638.1|DR795638
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|86466746|gb|DY233116.1|DY233116
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
EST: gi|211366190|gb|FL288087.1|FL288087
EST:     TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAG                         GAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG
genomic: TTGGCAATCGTTTACTGAAGCCATATGTGGTGGCGGAACCTGAAATTCAGgtgagaatct ... taaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaactgggtgcttccaaataggcctttaatgaagttcttttctaataaactgcagGAAGAACAGTTCAGTGATGAGCTGGAATGCCTGGTTCTCGCTAGTGACGGGCTTTGGGATGTTGTGGAAAATGAG
                                       ttctaat  putative branch site (score: 2)
                                  ttcttttctaataaa  TA-rich tract