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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagacagttcggcttcctgttgtaccttgtgttagagttgtgtactctggatgggatgctgattgtgtttttgcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG

Basic information

species Zea mays
transcript GRMZM2G064023_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G064023_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g10070.1 (Oryza sativa), 3'ss of exon 3
-------------------------------------------------gtaagacagttcg-gcttcctgttgt--accttgtgttagagttgtgtactctggatgg-gatgct-gattgtgtttttg-----caaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
                                                    ||  | |  | ||   |||| |     || |     | |   ||| ||||| |    |||| | |||||||||| |       | ||||||||||| ||||||||| |||||||||||||||| ||||| |||
gtaagtcaattagtttttgttcgttcgtgctaaatgtgtggttgaaactaccagttactatgtgccatctgtggctaggctcgaaagtggggaatgtgctctgaaaaaagatgtttgattgtgtttctaaatattatatgcagGATCTCAAGTCCCAGCTGCAGGAATTGATTCCTGAACAACAG

upper sequence: GRMZM2G064023_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g33240.3 (Oryza sativa), 3'ss of exon 2
-----------------------------------------------------------------------gtaagacagttcggcttcctgttgtacct---------tgtgttagagttg----tgtactctggatgggatgctgattgtgtttttgcaaatg---------cagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
                                                                       |  ||  |      || |||  |||  ||         ||   |  |||||    ||| ||||| |   |||| |   | ||| ||   ||||          |||||||||||||||||| |||||||||||||||| || || |||
gtaagacaataatagtttgtttgtttctttgtttgtttgttcgtgctataaatatttgcatggttgaaattgatagttaccctctctaccttctgtggctggctacgattgaaattaagttggaaatgtgctctgaaaaagatgtttgatttgtgttcctaaatattatgctttcagGATCTTAAGTCCCAGCTGCAGGAATTGATTCCCGAGCAACAG
















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|76287895|gb|DV027463.1|DV027463
EST:     CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
genomic: CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
EST: gi|71450120|gb|DR831170.1|DR831170
EST:     CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
genomic: CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
EST: gi|76284365|gb|DV023933.1|DV023933
EST:     CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
genomic: CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
EST: gi|213174510|gb|FM184748.1|FM184748
EST:     CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
genomic: CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
EST: gi|149090362|gb|EE179668.2|EE179668
EST:     CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
genomic: CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
EST: gi|149082725|gb|EE171943.2|EE171943
EST:     CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
genomic: CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
EST: gi|67033527|gb|CO462276.1|CO462276
EST:     CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
genomic: CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
EST: gi|8103179|gb|AW927835.1|AW927835
EST:     CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
genomic: CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
EST: gi|149077813|gb|EE166538.2|EE166538
EST:     CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
genomic: CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
EST: gi|211399063|gb|FL099822.1|FL099822
EST:     CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTC                         GATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
genomic: CCACGCTGGGTGGTGTGAGATGGCTGCAGATGCAGAGCGCGTCCGATCTCgtaagacagt ... gcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgttagagttgtgtactctggatgggatgctgattgtgtttttgcaaatgcagGATCTTAAGTCCCAGTTGCAGGAATTGATTCCGGAACAGCAG
                             tgctgat  putative branch site (score: 3)
                                        tttttgc  putative PPT
                                      tgttttt  TA-rich tract