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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagcagttggatggaactctgaatagtggtgacttgcttgactgagctttttttcagttcttgctgcttctgatctactactgtatgagcttgttttcagGTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCGCAAG

Basic information

species Zea mays
transcript GRMZM5G822098_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G822098_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os10g35644.1 (Oryza sativa), 3'ss of exon 3
cagcagt-tggatggaactctg-aatagtggtgacttgcttgactgagctttttttcagttcttgctgcttctgatctactactgtatgagcttgttttcagGTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCGCAAG
||  ||| ||  ||      ||  ||  |    | ||  ||||   |   || ||        ||||| || || |||   | | | |||  | |||  |||||||||||| || |||||||||||||| | ||||||||||||||| || ||||||
catgagtgtgtgtgatgggttgtgatgctatctaattatttgatcaaaagttcttgtgtgctctgctggtt-tggtctga-agtctctgaattcgttcacagGTGGGCTGCTAGAGTGCTGGTGAACAGTGCCGAAGCCTGCCGGCATGGTCGCAAG
















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|211326786|gb|FL341537.1|FL341537
EST:     CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGC                         GTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACS-C-G
genomic: CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCgtgagttcgc ... ttgttttcagGTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
EST: gi|148990367|gb|EE031933.2|EE031933
EST:     CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGC                         GTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
genomic: CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCgtgagttcgc ... ttgttttcagGTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
EST: gi|94472889|gb|EB701847.1|EB701847
EST:     CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGC                         GTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
genomic: CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCgtgagttcgc ... ttgttttcagGTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
EST: gi|211409814|gb|FL346481.1|FL346481
EST:     CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGC                         GTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
genomic: CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCgtgagttcgc ... ttgttttcagGTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
EST: gi|78116852|gb|DV535239.1|DV535239
EST:     CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGC                         GTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
genomic: CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCgtgagttcgc ... ttgttttcagGTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
EST: gi|101391075|gb|EB817471.1|EB817471
EST:     CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGC                         GTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
genomic: CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCgtgagttcgc ... ttgttttcagGTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
EST: gi|76292228|gb|DV031796.1|DV031796
EST:     CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGC                         GTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
genomic: CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCgtgagttcgc ... ttgttttcagGTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCG
EST: gi|211170193|gb|FL324191.1|FL324191
EST:     CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGC                         GTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTG
genomic: CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCgtgagttcgc ... ttgttttcagGTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctttttttcagttcttgctgcttctgatctactactgtatgagcttgttttcagGTGGGCTGCCAGGGTGCTGGTGAACAGCGTCGAAGCCTGCCGGCACGGCCGCAAG
                      ttctgat  putative branch site (score: 3)
                                            cttgttttc  putative PPT
                                             ttgtttt  TA-rich tract