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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtccttactttctgaatgccttttgaaatatactatctgtgcacctctagagttagtccaaggttccagaacttaacctttttgttttctatgtgcag

Basic information

species Zea mays
transcript GRMZM2G059671_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G059671_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os02g32610.2 (Oryza sativa), 5'ss of exon 10
TTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtccttactttctgaatgccttttgaaa-------tatactatctgtgcacctctagagttagtccaaggttccagaacttaacctttttgttttctatgtgcag
|||||||||||| |||| |||| ||||| |||||||| ||| ||||||||||||| ||||||||||| || ||||| |||||||| ||||| ||||||||||||||    ||||||||| | |  ||| |||       || ||||| ||   ||||||||   |||      |||||   || |||  |||||  ||  |   |||||
TTGCAATTATGAAAAGTCTGCGCCATCCAAACATTGTCCTTTTTATGGGTGCTGTTACTCAGCCACCAAAACTTTCGATTGTGACAGAATATCTATCAAGgtgtgttga-actttctgattactatttcaaaattgatgtaaactatgtgcttacctctagt-ctagcttgtagttccc--acataagtttttt--ttcttgaatgcag

upper sequence: GRMZM2G059671_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA13G21480.1 (Glycine max), 5'ss of exon 9
TTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgt---gtgtccttactt--tctgaatgccttt---tgaaatatactatctgtgcacctctagagttagtccaaggt-tccagaacttaaccttttt---gtttt----ctatgtgcag
||||||| |||| | |||| || ||||| ||||||||| |  ||||||| || ||||||||||| |||||| | |||||||| || |||||  |||| ||||       |  ||| |  ||   || |||||   | ||| |    |  | | ||   ||| ||  | |  | | | |   || ||| || || |    ||| |    ||| ||||||
TTGCAATAATGAAACGTTTACGGCATCCAAACATTGTTTTGTTTATGGGGGCAGTCACTCAGCCTCCTAACTTATCAATTGTCACGGAATATTTATCTAGgttgtactcctctacctgttcctcatccctttccctaaaagagggaagtttttcaaggctatagg-attataggatattttgaccttgacattctaagagttcttgacctaagtgcag

upper sequence: GRMZM2G059671_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA10G07610.1 (Glycine max), 5'ss of exon 11
TTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgt-gtgtcctt----actttctgaatgccttt---tgaaatatactatctgtgcacctctagagttagtccaaggttccagaacttaaccttttt---gtttt----ctatgtgcag
   |||| |||| | |||| || ||||| ||||||||| |  ||||||| || ||||||||||| |||||| | |||||||| || |||||  ||||||||| ||   | |    |  |||   ||   |||   | ||| |    |  | | ||   |||  | || |   |  ||   || ||| |  || |    ||| |    ||| ||||||
---CAATAATGAAACGTTTACGGCATCCAAACATTGTTTTGTTTATGGGGGCAGTCACTCAGCCTCCTAACTTATCAATTGTCACAGAATATTTATCAAGGTTgtactcctctacatgttcctcatctttttccctcaaagagggaagtttttcaaggctatggataataggatatttt-gaccttgagattctaagagttcttgacctaagtgcag

upper sequence: GRMZM2G059671_T01 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA03G34890.1 (Glycine max), 5'ss of exon 10
TTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtc-----cttactttctgaat-----gccttttgaaatatacta------tctgtgcacctctagagttagtccaaggttccagaacttaacctttttgttttctatgtgcag
||||||| |||| | | || || ||||| ||||||||| | ||||||||||| |||||| |||| ||||| || |||||||| || |||||  | ||||||| |  |     || |  | | |  |      |||||     ||||  |      ||| | ||   ||| |     ||  |   |  ||| | |||    |||| ||    |||||||
TTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGTGCAGTCACTAAGCCTCCTAATCTATCAATTGTCACAGAATATTTGTCAAGgttttacaatatctcatctaccggttcctttacctttcctcctataagagggatctcttttcatggctataaaatatcttacacttgaga-cctaaaggatttgattgaactgtgcag

upper sequence: GRMZM2G059671_T01 (Zea mays), 5'ss of exon 8
lower sequence: Vv13s0074g00430.t01 (Vitis vinifera), 5'ss of exon 9
TTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtccttactttctgaat---gccttttgaaatatactatctgtgca------cctctagagttagtccaaggttccag-aacttaacctttttgttttctatgtgcag
||||||| |||| | | ||| | ||||| |||||||||||  ||||||||||||| |||||||| ||  | || || || || || |||||| |||||||||   |  | | ||| |  ||   || | ||    |||||  | | | ||      | |  | | | | || ||  |  ||   | |||   | || |||||  || |||||
TTGCAATCATGAAACGCTTGAGGCATCCAAACATTGTTCTCTTTATGGGTGCTGTTACTCAGCCTCCACATCTGTCCATAGTTACAGAATACTTATCAAGgttctttatgattttttagatattgcttattttcttataccctgtttacaagaagtcgtgcaaaatgaatctaatatatcactgaattagaatattggttttgcat-tgcag

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|20802940|gb|BQ293990.1|BQ293990
EST:     GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
genomic: GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
EST: gi|76284240|gb|DV023808.1|DV023808
EST:     CAATTGTGACTGAAT-CCTTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGG
genomic: CAATTGTGACTGAATACC-TATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGG
EST: gi|32836824|gb|CD976502.1|CD976502
EST:     GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
genomic: GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
EST: gi|71445939|gb|DR826989.1|DR826989
EST:     GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGGCATGCTGCAAGGGAAAATCTGG
genomic: GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGG-CATGCTGCAAGGGAAAATCTGG
EST: gi|26456437|gb|CA828020.1|CA828020
EST:     GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
genomic: GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
EST: gi|32839244|gb|CD978925.1|CD978925
EST:     GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
genomic: GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
EST: gi|32837172|gb|CD976850.1|CD976850
EST:     GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
genomic: GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
EST: gi|60358265|gb|DN225238.1|DN225238
EST:     CTAACCTTTCAATTGTGACTGAATACCTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
genomic: CTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
EST: gi|60337361|gb|DN204334.1|DN204334
EST:     GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
genomic: GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
EST: gi|32838830|gb|CD978511.1|CD978511
EST:     GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
genomic: GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
EST: gi|86471848|gb|DY238218.1|DY238218
EST:     GCTGTCTCTCACCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGCGTGCTGCAAGGGAAAATCTGGA
genomic: GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
EST: gi|32836743|gb|CD976421.1|CD976421
EST:     GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
genomic: GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
EST: gi|71445940|gb|DR826990.1|DR826990
EST:     GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAG                         AGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA
genomic: GCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAAGgtgtgtcctt ... ctatgtgcagAGGTAGCTTATACAGACTTTTACACAGGCATGCTGCAAGGGAAAATCTGGA