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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctaaaggcaaggccagggctgctctttttttatgcaactttacatcctgattactgtggcacacaacaataaccgagtctgtttgttttctttcttcagGAAGTATATGAACAACAGAAGGAACTTATTTTACTTGGGGAACGTGTTGTTCTTGTAACACTTGGTTTTGATTTTAATGTGAACCATCCTTACAAGCCCT

Basic information

species Zea mays
transcript GRMZM2G308570_T02
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G308570_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA15G41040.1 (Glycine max), 3'ss of exon 3
---tctaaaggcaaggccagggctgctctttttttatgcaactttacatcctgattactgtggcacacaacaataaccgagtctgtttgttttctttcttcagGAAGTATATGAACAACAGAAGGAACTTATTTTACTTGGGGAACGTGTTGTTCTTGTAACACTTGGTTTTGATTTTAATGTGAACCATCCTTACAAGCCCT
   | |   |             |    ||| ||| || |  | |  ||  |   |    |  |    || |   |     | |   ||   |  |    |||||||| ||||| || || || ||| | ||||||||||| ||  | |||||||||| ||| |||||||||||| | |||||| |||||||||| || ||  
aactgtggggatttatttcaaaataaaatttcttt-tgaacttatcaattttttcttacctctcttgtaata--tattttcttttcatgcaattgtgacacagGAAGTGTATGAGCAGCATAAAGAATTAATTTTACTTGGAGAGAGGGTTGTTCTTGCAACTCTTGGTTTTGATCTGAATGTGCACCATCCTTATAAACCTC

upper sequence: GRMZM2G308570_T02 (Zea mays), 3'ss of exon 12
lower sequence: Vv19s0027g01670.t01 (Vitis vinifera), 3'ss of exon 3
tctaaaggcaaggccagggctgctctttttttatgcaacttta-catcctgattactgtggcacacaacaataaccgagtctgtttgttttctttctt-cagGAAGTATATGAACAACAGAAGGAACTTATTTTACTTGGGGAACGTGTTGTTCTTGTAACACTTGGTTTTGATTTTAATGTGAACCATCCTTACAAGCCCT
 || |||| ||  |        |  | |||  | |      |       | |||  | |  |   | |   |  |    | ||||| |  ||| || | ||||| ||||||||||| ||||||||| | ||||||||||| ||  | ||||| ||||  ||||||||||||||| |||||||| ||||||| || || ||| 
-ctcaaggaaatacttcattgtcattgtttgaaggtggtggtggtggttttatttttttccccttccatgttt-cttcatatgtttttcatctatcatgcagGAGGTATATGAACAGCAGAAGGAATTAATTTTACTTGGAGAGAGGGTTGTACTTGCTACACTTGGTTTTGATCTTAATGTGCACCATCCATATAAACCCC
















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|76937118|gb|DV175047.1|DV175047
EST:     AGATCATCCACAAAAAGGATCCTGCTGCAGTTCAACGAATAANACATAAG                         GAAGTATATGAACAACA
genomic: AGATCATCCACAAAAAGGATCCTGCTGCAGTTCAACGAATAAAACATAAGgtgattttta ... ctttcttcagGAAGTATATGAACAACA
EST: gi|93283332|gb|EB675596.1|EB675596
EST:     GATCATCCACAAAAAAGGATCCTGCTGCAGTTCACCGAATAAAACATAAG                         GGAGTATATGAACAACAGAAGGAACTTATTTTTACTTGGGGA
genomic: GATCATCCACAAAAA-GGATCCTGCTGCAGTTCAACGAATAAAACATAAGgtgattttta ... ctttcttcagGAAGTATATGAACAACAGAAGGAACTTATTTT-ACTTGGGGA
EST: gi|78111792|gb|DV530189.1|DV530189
EST:     AGATCATCCACAAAAAGGATCCTGCTGCAGTTCAACGAATAAAACATAAG                         GAAGTATATGAACAACAGAAGGAACTTATTTTACTGGGGGAACGTGTTGTT
genomic: AGATCATCCACAAAAAGGATCCTGCTGCAGTTCAACGAATAAAACATAAGgtgattttta ... ctttcttcagGAAGTATATGAACAACAGAAGGAACTTATTTTACTTGGGGAACGTGTTGTT
EST: gi|149102056|gb|EE287526.2|EE287526
EST:     AGATCATCCACAAAAAGGATCCTGCTGCAGTTCAACGAATAANACATAAG                         GAAGTATATGAACAACAGAAGGAACTTATTTTACTTGGGGGACGTGTTGTT
genomic: AGATCATCCACAAAAAGGATCCTGCTGCAGTTCAACGAATAAAACATAAGgtgattttta ... ctttcttcagGAAGTATATGAACAACAGAAGGAACTTATTTTACTTGGGGAACGTGTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctgattactgtggcacacaacaataaccgagtctgtttgttttctttcttcagGAAGTATATGAACAACAGAAGGAACTTATTTTACTTGGGGAACGTGTTGTTCTTGTAACACTTGGTTTTGATTTTAATGTGAACCATCCTTACAAGCCCT
                      caataac  putative branch site (score: 2)
                                 tctgtttgttttcttt  putative PPT
                    aacaataa  TA-rich tract