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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcggggaccatatatcatagtgtgtattccaaatgtgattgatagaaattgagatagtggttaccggtctcattagttcatttgacctgaatttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACGCAGAAGGTGTTCCATTTCCTAAACGTCATTGTCAATGGCG

Basic information

species Zea mays
transcript GRMZM2G171469_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171469_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g02850.2 (Oryza sativa), 3'ss of exon 1
gcggggaccatatatcatagtgtgtattccaaatgtg-attgatagaaattgagatagtggt--taccggtctcattagttcatttgacctgaatttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACGCAGAAGGTGTTCCATTTCCTAAACGTCATTGTCAATGGCG
  ||| ||  | || | ||  || |  |  || |||  | |||| || |    |  |   ||   |   |  || || |  | ||||    ||||||   ||||||||| |||| |||||||| ||  | || |||||||| || ||||| || |||||||||||||||||| | ||| | ||||| ||||| |
--gggaactttgtagcttaccgtatgcttgaattgtatagtgatggagacatgggcatcagtctcatttgagtcgtttgcacttttggga-gaatttttgcagGTCCAATTGATCAGAATCGAATGTAGAGTACCTGAGTACGGATGGACGACACAGAAGGTGTTCCATTTCATGAACTTTATTGTGAATGGAG

upper sequence: GRMZM2G171469_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ15891 (Selaginella moellendorffii), 3'ss of exon 1
gcggggaccatatatcatagtgtgtattccaaatgtga-ttgatagaaattgagatagtggttaccggtctcattagttcatttgacctgaatttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACGCAGAAGGTGTTCCATTTCCTAAACGTCATTGTCAATGGCG
                                  || | ||  | ||   |   |   | | |     ||  ||   ||   ||    ||  | |  | || |||||||  | |||||  |   |||||| || |||||||| |||||||||||||| ||||||||| |||| ||  || |||| ||||| |
----------------------------------gtaagttagttgattcttgtaagttagctgtgtttcctatcgattttcttcctttgtttctt-ttagATCCAACTCGTTAGAATACAAATCCGGGTGCCGGAGTATGGCTGGACAACGCAGAAAGTGTTCCATCTCCTCAATTTCTTTGTAAATGGAG

upper sequence: GRMZM2G171469_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ33253 (Selaginella moellendorffii), 3'ss of exon 1
gcggggaccatatatcatagtgtgtattccaaatgtga-ttgatagaaattgagatagtggttaccggtctcattagttcatttgacctgaatttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACGCAGAAGGTGTTCCATTTCCTAAACGTCATTGTCAATGGCG
                                  || | ||  | ||   |   |   | | |     ||  ||   ||   ||         ||  | || |||||||  | |||||  |   |||||| || |||||||| |||||||||||||| ||||||||| |||| ||  || |||| ||||| |
----------------------------------gtaagttagttgattcttgtaagttagctgtgtttcctatcgattttcttc-------ctttgttagATCCAACTCGTTAGAATACAAATCCGGGTGCCGGAGTATGGCTGGACAACGCAGAAAGTGTTCCATCTCCTCAATTTCTTTGTAAATGGAG

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|211394911|gb|FL373461.1|FL373461
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211280348|gb|FL373309.1|FL373309
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211494351|gb|FL425169.1|FL425169
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|78108686|gb|DV527104.1|DV527104
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211249778|gb|FL400508.1|FL400508
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|149017006|gb|EE045660.2|EE045660
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211542534|gb|FL409062.1|FL409062
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211330706|gb|FL425856.1|FL425856
EST:     CCTTCMACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|91873273|gb|EB403230.1|EB403230
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|78108178|gb|DV526596.1|DV526596
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|71322323|gb|DR797838.1|DR797838
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|74245269|gb|DT653183.1|DT653183
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211015090|gb|FL429494.1|FL429494
EST:     CCTTCCACGCCCTCGCCGCGCTCTACGGCATCGTTGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|78079086|gb|DV507498.1|DV507498
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211278771|gb|FL390080.1|FL390080
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|74237785|gb|DT645699.1|DT645699
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|50339374|gb|CO534500.1|CO534500
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|76018861|gb|DT946031.1|DT946031
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211503826|gb|FL372211.1|FL372211
EST:     CTTACCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CTT-CCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211060391|gb|FL405187.1|FL405187
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211461108|gb|FL380552.1|FL380552
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|50333507|gb|CO528633.1|CO528633
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211194228|gb|FL384757.1|FL384757
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|71770532|gb|DR968469.1|DR968469
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211500289|gb|FL429983.1|FL429983
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|149075806|gb|EE164341.2|EE164341
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211199876|gb|FL416104.1|FL416104
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|38688376|gb|CK145407.1|CK145407
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAAGTATGGGTGGACAAC
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGA-GTATGGGTGGACAAC
EST: gi|211195060|gb|FL425764.1|FL425764
EST:     CCTTCCACGCCCTCGCCGCGCTCTACGGCATCGTTGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGYGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211158139|gb|FL392767.1|FL392767
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
EST: gi|211504995|gb|FL428970.1|FL428970
EST:     CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTA                         GTCCAACTTATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG
genomic: CCTTCCACGCCCTCGCCGCGCTATACGGCATCGTCGCAGTCGTAGCCCTAgtaagctcta ... atttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattgagatagtggttaccggtctcattagttcatttgacctgaatttcatcagGTCCAACTGATAAGAATCGAGTGCCGGGTTCCTGAGTATGGGTGGACAACGCAGAAGGTGTTCCATTTCCTAAACGTCATTGTCAATGGCG
                                  atttgac  putative branch site (score: 4)
                                              tttcatc  putative PPT
                                            aatttcat  TA-rich tract