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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagcgtttctttttctccaacttggcctagttttttctctcactttggctcatattttgttgatggtgcgtgcataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAGGACAAAAGATACAAGAATAGGGAGTTACAAATAATGCGATCAATTGACC

Basic information

species Zea mays
transcript GRMZM2G043350_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G043350_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os06g35530.1 (Oryza sativa), 3'ss of exon 3
gttagcg-tttctttttctccaacttggcctagttttttctctcactttggctcatattttgttgatggtgcgtgcataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAGGACAAAAGATACAAGAATAGGGAGTTACAAATAATGCGATCAATTGACC
||||| | | ||||  |      ||   | |  || |   |  ||   |  ||  |||  | ||  |  || |    |  |  |||||||||||| |||||||||||||||| ||||| |||||||||||  ||||||||||| |||||||||| || |||||||| |||||||||||||| || |
gttagagatatcttcctgatgttctcaccatgattctggattaca---taactt-tatcgtattagtcttgtgcatgtgcatgcagGCAAAATGCCTTGAGACTGGTGAAACTGTTGCCATTAAGAAGGTCTTACAGGACAAACGATACAAGAACAGAGAGTTACAGATAATGCGATCAATGGATC

upper sequence: GRMZM2G043350_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S60_85V6.1 (Physcomitrella patens), 3'ss of exon 4
------------------gttagcgtttctttttctccaacttggcctagttttttct---ctcactttggctcatattttgttgatggtgcgtgcataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAGGACAAAAGATACAAGAATAGGGAGTTACAAATAATGCGATCAATTGACC
                   |||  | || ||| | | |  || | |  |   |  |       |||  | |   |  | | || | ||    |||       ||||||||||||||| || ||||| ||||| || || || ||||||||  | || |||||| ||||||||||| | ||||| || || ||||||    | || |
tgcattgtagagaagaattttatgggttatttgtttacg-ctagtctcaagctggtagaagtgcaccgttgtctaagtatcgt-ggtgacctgtgtg----atcagGCAAAATGCATCGAAACTGGGGAAACAGTGGCCATCAAGAAGGTGTTGCAAGACAAACGATACAAGAATCGTGAGTTGCAGATCATGCGACTGTTGGATC

upper sequence: GRMZM2G043350_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S306_62V6.1 (Physcomitrella patens), 3'ss of exon 3
----------------gttagcgtttctttttctccaacttggcctagttttttctctcactttggctcatattttgttgatg-gtgcgtgcataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAGGACAAAAGATACAAGAATAGGGAGTTACAAATAATGCGATCAATTGACC
                ||     |   | | | |  | | |  |||  |  |   |       | |||  | | |   |   | ||   ||  |     |||||||||||||| || ||||| || || || || || ||||| || || ||||||||||||||||||||| | ||| | || || ||||||    | ||||
tacgttgcggaggaaagtccaaatggttatatgtttaccctaacctcatgctgg-tagagggatagct-gtgtctgacttgcgtgttaatgtgtgttgccagGCAAAATGCATCGAAACTGGGGAGACGGTGGCTATAAAGAAAGTGCTGCAGGACAAAAGATACAAGAATCGAGAGCTGCAGATCATGCGACTGTTGGACC

upper sequence: GRMZM2G043350_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S74_168V6.1 (Physcomitrella patens), 3'ss of exon 3
gttagcgtttctttttctccaacttggcctagttttttc---tctcactttggctcatat----------tttgttgatggtgcgtgca----taaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAGGACAAAAGATACAAGAATAGGGAGTTACAAATAATGCGATCAATTGACC
  || | |  ||    |   |  | || ||  | | | |   |  |  |   | |  ||           | |  |||| | | | | |    |    ||||||||||||||| ||||  || ||||| || || ||||||||||| || |||||||| |||||||||||  | ||  | || || |||||     | || |
--taacttcactggagccagacatggggctgatctgtccatgtgacgttcaaggtggtagaactaggggatgttctgatcgcgagggtaattttgttgtcagGCAAAATGCATAGAGAGCGGAGAAACTGTGGCTATTAAGAAGGTGCTTCAGGACAAGAGATACAAGAACCGAGAACTTCAGATCATGCGGCTGCTGGAGC

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|211388201|gb|FL200487.1|FL200487
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|211388200|gb|FL200486.1|FL200486
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|71434429|gb|DR815479.1|DR815479
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAGTGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|6021078|gb|AW066006.1|AW066006
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|211390827|gb|FL200489.1|FL200489
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|211385567|gb|FL200472.1|FL200472
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|211388193|gb|FL200479.1|FL200479
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|6021040|gb|AW065968.1|AW065968
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAG-CTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|211388189|gb|FL200475.1|FL200475
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|211388188|gb|FL200474.1|FL200474
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|211390829|gb|FL200491.1|FL200491
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|211388198|gb|FL200484.1|FL200484
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAG
EST: gi|211388194|gb|FL200480.1|FL200480
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|211388199|gb|FL200485.1|FL200485
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG
EST: gi|211388202|gb|FL200488.1|FL200488
EST:     ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAG                         GCAAAATGCATTGAGACTGGTGAAACTGTTGCAATTAAGAAGGTTCTACAG
genomic: ATATGGCTGAGCGAGTTGTTGGAACTGGATCGTTTGGGGTTGTCTTCCAGgttagcgttt ... ataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttttttctctcactttggctcatattttgttgatggtgcgtgcataaactcagGCAAAATGCATTGAGACTGGTGAAACCGTTGCAATTAAGAAGGTTCTACAGGACAAAAGATACAAGAATAGGGAGTTACAAATAATGCGATCAATTGACC
                       atattttgtt  TA-rich tract