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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACAAAAAATCCTGTAGATGATCAGCAGTGGCTCACTTACTGGGTGTTGTACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataacacttgtggtcatgtcccaatgtgttcaattttatgttctttgggtgggcttcgtgattatttggaaacattactggtggtacatggatatagctgtttagtgcaacaagttggtgaatagaaaactaaatatgcttactttagatctttgtttgcag

Basic information

species Zea mays
transcript GRMZM2G047860_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G047860_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os06g12220.1 (Oryza sativa), 5'ss of exon 3
AGACAAAAAATCCTGTAGATGATCAGCAGTGGCTCACTTACTGGGTGTTGTACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataacacttgtggtcatgtcccaatgtgttcaattttatgttctttgggtgggcttcgtgattatttggaaacattactggtggtacatggatatagctgtttagtgcaacaagttggtgaatagaaaactaaatatgcttactttagatctttgtttgcag
| ||||||  |||||| ||||||||||| |||||||||||||||||| |||||||||||||||||||||||||||| |||||||||||| | || || ||||||  | || ||        |||   |  | ||   |||| | ||  |    |    ||  | |  |||||   |  |  ||           ||| ||||                                                                
AAACAAAATCTCCTGTTGATGATCAGCAATGGCTCACTTACTGGGTGCTGTACTCGTTTATCACTTTGTTTGAGCTTACTTTTGCTCCAGTAATTGAATGgtaatgaccattttc--ctgggtcaggagatttttt-ttttgtcttactcatttccttttgtttagcatttg---atttccctcaaaaagttcagatttagcaaca------------------------------------------------------------

upper sequence: GRMZM2G047860_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA05G01160.1 (Glycine max), 5'ss of exon 3
AGACAAAAAATCCTGTAGATGATCAGCAGTGGCTCACTTACTGGGTGTTGTACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataacacttgtggtcatgtcccaatgtgttcaattttatgttctttgggtgggcttcgtgattatttggaaacattactggtggtacatggatatagctgtttagtgcaacaagttggtgaatagaaaactaaatatgcttactttagatctttgtttgcag
|||  ||   |||| | |||||||||||||||||||||||||||||  | ||||| || |||||  | ||||| || |||||||||  | |  | ||||||||   |    ||||    || |    ||||  |  || |||  |  ||||   |    | ||  | | |   |||| | || | |   || |     | |   ||                                                            
AGAGCAAGTCTCCTATTGATGATCAGCAGTGGCTCACTTACTGGGTTCTCTACTCCTTGATCACCCTCTTTGAACTTACTTTTGCTAAAGTCCTTGAGTGgtatgcattttttgta--tatctttttatgttgtttatgttaattgatttgcaagaa--tagtactcagtgataaacgtgac-gataa-acctcagagttgagatt------------------------------------------------------------

upper sequence: GRMZM2G047860_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA17G10730.1 (Glycine max), 5'ss of exon 3
AGACAAAAAATCCTGTAGATGATCAGCAGTGGCTCACTTACTGGGTGTTGTACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataacacttgtggtcatgtcccaatgtgttcaattttatgttctttgggtgggcttcgtgattatttgg-aaacattactggtggtacatggatatagctgtttagtgcaacaagttggtgaatagaaaactaaatatgcttactttagatctttgtttgcag
|||  ||   |||  | |||||||||||||||||||||||||||||  | ||||| || |||||  | ||||| || || ||||||  | |  | || |||||  |||| |||    |  | ||    ||| |   || |||  |  |||||  ||   | |||| || |    |||    |            |  |  || | ||| |                                                         
AGAGCAAGTCTCCCATTGATGATCAGCAGTGGCTCACTTACTGGGTTCTCTACTCCTTGATCACACTCTTTGAACTTACCTTTGCTAGAGTCCTTGAATGgtat-taaccctt----ttttttcttcttgttt---atgttaattgttttggaagg---ttgtgagtactcattaaatgccataataaacttgagacttgagatttttggg--------------------------------------------------------

upper sequence: GRMZM2G047860_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv17s0000g05990.t01 (Vitis vinifera), 5'ss of exon 3
AGACAAAAAATCCTGTAGATGATCAGCAGTGGCTCACTTACTGGGTGTTGTACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataacacttgtggtca-----tgtcccaatgtgttcaa----ttttatgttctttgggtgggct---tcgtgattatt-tggaaacattactggtggtacatggatatagctgtttagtgcaacaagttggtgaatagaaaactaaatatgcttactttagatctttgtttgcag
|||| ||    ||||| ||||||||||| |||||||| |||||||| ||||| ||  | |||||  | || ||||| || ||||||  | | || || ||||||       || || | |     |  ||||||||| |       |||| |  || ||| ||||  |   |  |  | ||| | ||| || || |||                                                                                 
AGACCAAGTCCCCTGTTGATGATCAGCAATGGCTCACATACTGGGTTTTGTATTCTATGATCACACTCTTCGAGCTCACCTTTGCTAAAGTCATTGAATGgtaatcgtattttatgtttaacactttccccaatgtggttgggctcttttcttctccttgagtggagtatcttttcctcattcttgaatcaataatggaa-------------------------------------------------------------------------------

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|33103480|gb|CF063440.1|CF063440
EST:     TACTCATTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCATATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
EST: gi|211371979|gb|FL186724.1|FL186724
EST:     TACTCATTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
EST: gi|32808662|gb|CD960896.1|CD960896
EST:     TGCTCATTTGTCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTA
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTA
EST: gi|33094100|gb|CF054094.1|CF054094
EST:     TACTCATTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
EST: gi|32917049|gb|CF021861.1|CF021861
EST:     TACTCATTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
EST: gi|33103180|gb|CF063140.1|CF063140
EST:     TACTCATTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCATATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
EST: gi|32933985|gb|CF038797.1|CF038797
EST:     TACTCATTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
EST: gi|33104168|gb|CF064128.1|CF064128
EST:     TACTCATTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCATATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
EST: gi|47961761|gb|CN844470.1|CN844470
EST:     TACTCATTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
EST: gi|32933645|gb|CF038457.1|CF038457
EST:     ACTCATTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: ACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
EST: gi|211371978|gb|FL186723.1|FL186723
EST:     TACTCATTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
EST: gi|94472096|gb|EB701054.1|EB701054
EST:     TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
EST: gi|76014693|gb|DT941863.1|DT941863
EST:     TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
EST: gi|86465815|gb|DY232188.1|DY232188
EST:     TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTG                         GCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT
genomic: TACTCGTTTATCACTTTGTTTGAGCTAACTTTTGCTCCAATTATCGAGTGgtaaataaca ... ttgtttgcagGCTTCCATTTTGGTCGTATGCAAAGCTGTTCTTTAACTGCTGGTTGGTCTT