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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatgcaaggatcctccagcactgtatttttcataatctctgaaacaaaaacaaattggtcatggaagactgaacaggttgatgtcatgaacccctcagcttatatctttttcgcgtctgtcgtgctttcagAGATTCCTGCAGACTATGAGGGCCGTACAAGGTTCACTGATTGTATCCTCAAGCATCCAAATAATTCTTGGATATAGCCAGTTGTGGGCTATATGTTCTA

Basic information

species Zea mays
transcript GRMZM2G100484_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G100484_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os09g15170.1 (Oryza sativa), 3'ss of exon 4
gtaagtatgcaaggatcctccagcactgtatttttcataatctctgaaacaaaaacaaattggtcatggaag-actgaacaggttgatgtcatgaacccctcagcttatatctttttcgcgtctgtcgtgctttcagAGATTCCTGCAGACTATGAGGGCCGTACAAGGTTCACTGATTGTATCCTCAAGCATCCAAATAATTCTTGGATATAGCCAGTTGTGGGCTATATGTTCTA
|||||||||||| |||| || |||    |||||   |||  || |        ||  |  ||| |||    | |||| | |  ||   ||  |     ||| |     ||||| ||| |  ||        || ||||||||  ||||||| ||||| ||  ||||||| || ||||| || ||||| ||||| || ||||||||||| |||||||| |||||||| || || || |
gtaagtatgcaatgatcttcaagct---tatttcaaataggctat----tgttaatta--tggccattttggtactgga-aaattttcgttgtatttacctaaa---gtatctgttttggttc------atttgcagAGATTTGTGCAGACAATGAGAGCAATACAAGGCTCCCTGATAGTCTCCTCGAGCATTCAGATAATTCTTGGCTATAGCCAATTGTGGGCAATTTGCTCCA
















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|76283310|gb|DV022878.1|DV022878
EST:     TCTCCATAGTCCGTGACCCCTCGTTCGCGCGTATAGCTGATGGCCACACT                         AGATTCCTGCAGACTATGAGGGCCGTACAAGGTTCACTGATTGTATCCTCA
genomic: TCTCCATAGTCCGTGACCCCTCGTTCGCGCGTATAGCTGATGGCCACACTgtaagtatgc ... gtgctttcagAGATTCCTGCAGACTATGAGGGCCGTACAAGGTTCACTGATTGTATCCTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgatgtcatgaacccctcagcttatatctttttcgcgtctgtcgtgctttcagAGATTCCTGCAGACTATGAGGGCCGTACAAGGTTCACTGATTGTATCCTCAAGCATCCAAATAATTCTTGGATATAGCCAGTTGTGGGCTATATGTTCTA
 ggttgat  putative branch site (score: 5)
                                              tgctttc  putative PPT
                       ttatatcttttt  TA-rich tract