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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagacagttcgtcttcctgttatgccttgtggtagagttttgtgtactctggatagcatgctgattgtgtttctgcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG

Basic information

species Zea mays
transcript GRMZM2G063851_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G063851_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g10070.1 (Oryza sativa), 3'ss of exon 3
-------------------------------------------------gtaagacagttcgt-cttcctgttatgccttgtggtagagttttgtgtactctggatagc-atgct-gattgtgtttctg-----caaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
                                                    ||  | |  || |   ||||          |  || |     ||| ||||| | |   ||| | ||||||||||||       | ||||||||||| ||||||||| |||||||||||||||| |||||||||
gtaagtcaattagtttttgttcgttcgtgctaaatgtgtggttgaaactaccagttactatgtgccatctgtggctaggctcgaaagtggggaatgtgctctgaaaaaagatgtttgattgtgtttctaaatattatatgcagGATCTCAAGTCCCAGCTGCAGGAATTGATTCCTGAACAACAG

upper sequence: GRMZM2G063851_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g33240.3 (Oryza sativa), 3'ss of exon 2
-----------------------------------------------------------------------gtaagacagttcgtcttcctgttatgcct---tgtggtagagttttg--------tgtactctggatagcatgctga--ttgtgtttctgcaaatg-------cagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
                                                                       |  ||  |     ||| |||  | || ||   |  | | ||  ||          ||| ||||| | |  ||| |    ||||||| ||  | ||        |||||||||||||||||| |||||||||||||||| || ||||||
gtaagacaataatagtttgtttgtttctttgtttgtttgttcgtgctataaatatttgcatggttgaaattgatagttaccctctctaccttctgtggctggctacgattgaaattaagttggaaatgtgctctgaaaaagatgtttgatttgtgttcctaaatattatgctttcagGATCTTAAGTCCCAGCTGCAGGAATTGATTCCCGAGCAACAG

upper sequence: GRMZM2G063851_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv13s0156g00180.t01 (Vitis vinifera), 3'ss of exon 3
------------gtaagacagttcgtcttcctgttatgccttgtggtagagttt-tgtgtactctggatagcatgctgattgtgtttc---tgcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
             |       ||| | ||||| || ||  || | | | |  ||   | ||||   | | |  |  |  ||   |||    |    ||| |||| ||| | ||||||||| ||||||||||||| |||||||||
tgccaaccttatctttttttattctttttcctatt-tgt-ttatcgcatatcttgcttatacttctgtttgtttttttcttcctttttctttttccatgtagGACCTTCATTCCCAGTTGAAGGAATTGATTCCAGAACAACAG

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|211505526|gb|FL228165.1|FL228165
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|211507876|gb|FL228171.1|FL228171
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|211507874|gb|FL228169.1|FL228169
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|211059244|gb|FL131321.1|FL131321
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|148932412|gb|EC876097.2|EC876097
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|211507879|gb|FL228174.1|FL228174
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|93284646|gb|EB676910.1|EB676910
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|211510249|gb|FL228196.1|FL228196
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|148974563|gb|EE025351.2|EE025351
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|211510246|gb|FL228193.1|FL228193
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|211507880|gb|FL228175.1|FL228175
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|211507878|gb|FL228173.1|FL228173
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCCAGTTGCAGGAATTGATTCCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCC-AGTTGCAGGAATTGATTCC-GGAACAACAG
EST: gi|211510237|gb|FL228184.1|FL228184
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|211507873|gb|FL228168.1|FL228168
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|211507884|gb|FL228179.1|FL228179
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|211507875|gb|FL228170.1|FL228170
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
EST: gi|211505527|gb|FL228166.1|FL228166
EST:     CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
genomic: CCACGCTGGGGGGTGTGAGGTGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtagagttttgtgtactctggatagcatgctgattgtgtttctgcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAACAG
                             tgctgat  putative branch site (score: 3)
                                        tttctgc  putative PPT