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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggaagtttgtgttatcttggccatttattttatgctcaatgctatggtgtctaaagtttgcttttgaacagGATGCTGTTGAAGCTGCTGATTTGAGGGACTATAGTTCGCGAACTCGTGATTCCTTATCCTGTTGGAATCCTGATTCAATTGGTTTTAATTTAATAGAAA

Basic information

species Zea mays
transcript GRMZM2G373175_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g02884.1 (Oryza sativa), 3'ss of exon 3
gtatggaagtt-tgtgttatcttggccatttattttatgctcaatgctatggtgtc-----taaagtttgcttttgaacagGATGCTGTTGAAGCTGCTGATTTGAGGGACTATAGTTCGCGAACTCGTGATTCCTTATCCTGTTGGAATCCTGATTCAATTGGTTTTAATTTAATAGAAA
||||| |  |  ||  || |  || ||| | ||||  || |||  ||| |||| ||     |||| |   ||||||| |||||| | ||| ||||||||||||| |||||||| ||| | ||||||||||| ||  |||||||||||||||||||||| ||||||||||| || |||||||
gtatgtagttcctgcatttttatgcccact-atttcctgttcagagctttggtctcccctctaaactcatcttttgagcagGATACAGTTCAAGCTGCTGATTTAAGGGACTACAGTGCACGAACTCGTGACTCACTATCCTGTTGGAATCCTGATTCGATTGGTTTTAACTTGATAGAAA

upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 8
gtatggaagttt----gtgttatcttggccatttattttatgctcaatgctatggtgtctaaagtttgcttttgaacagGATGCTGTTGAAGCTGCTGATTTGAGGGACTATAGTTCGCGAACTCGTGATTCCTTATCCTGTTGGAATCCTGATTCAATTGGTTTTAATTTAATAGAAA
||||   |||||      | ||  |       || ||||    | ||||| ||  ||   |   | | ||| ||||||||||||  |||||| |||| ||||    |  |||||  | || || |  || || ||||||||||||||||||||||| |||||||||||  | || ||| 
gtataacagttttatgaggctacatactgttgttgtttttctataaatgc-atcttgaacactttatacttgtgaacagGATGCACTTGAAGTTGCTAATTTTGATGCATATAGCCCACGGACACAAGACTCTTTATCCTGTTGGAATCCTGATTCTATTGGTTTTAACCTTATCGAAC
















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|31351858|gb|CD436215.1|CD436215
EST:     AAAAGCAAGCTCTACAAAAGCGGAAGAGCCAAATCGCTTCTGTTGTGGAA                         GATGCTGTTGAAGCTGCTGATTTGAGGGACTATAGTTCGCGAACTCGTGAT
genomic: AAAAGCAAGCTCTACAAAAGCGGAAGAGCCAAATCGCTTCTGTTGTGGAAgtatggaagt ... ttttgaacagGATGCTGTTGAAGCTGCTGATTTGAGGGACTATAGTTCGCGAACTCGTGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggccatttattttatgctcaatgctatggtgtctaaagtttgcttttgaacagGATGCTGTTGAAGCTGCTGATTTGAGGGACTATAGTTCGCGAACTCGTGATTCCTTATCCTGTTGGAATCCTGATTCAATTGGTTTTAATTTAATAGAAA
                                gtctaaa  putative branch site (score: 3)
                                        tttgctttt  CT-rich tract
      atttattttatgct  TA-rich tract