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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggcactgtatctcaaaatatctacacctaaatgttttttctattgaaggttcttgttatggttattacttggcacttacatcaattgcaattttcttcagCCAAACATATGGAATTCTTGGGAGTTCAAGTGGGATGGATAACTGGACCATGGTTTCTTTCAATTTTCATCAATATGCTTCCATGGGAAAGTGGTCAGGT

Basic information

species Zea mays
transcript GRMZM2G154883_T03
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G154883_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g17540.3 (Oryza sativa), 3'ss of exon 7
------------------------------------------------------------------------------------------ggcactgtatc---tcaaaatatctacacctaaatgttttttc-----tattgaaggttcttgttatggt-tattacttggcacttacatcaattgcaattttctt-cagCCAAACATATGGAATTCTTGGGAGTTCAAGTGGGATGGATAACTGGACCATGGTTTCTTTCAATTTTCATCAATATGCTTCCATGGGAAAGTGGTCAGGT
                                                                                          |    |||||    |  |||| |  | |      | ||| ||       ||      |     || |||| ||| |||  | ||||||||||||| |||   |||| |||| || |||||||| ||| |||||||||| |||| |||| | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
gtttgtatttcaatgatattattactacacttgtccttttgtagcattctgcatttcacattatcttaaaaaaaacatggtcctggtcatgcttttgtattcagttgaaatgttgagatgactttatttgtttgaacacataatgtatcaactttgtggtgtatcactctgtacttacatcaattacaaccctctttcagCAAAGCATATGGATTTCCTGGGAGTTCAGGTGGCATGGGTGACTGGACCATGGTTTCTTTCAATTTTCATCAATATGCTTCCATGGGAAAGTGGTCAGGT

upper sequence: GRMZM2G154883_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 9
------------------------------------------------------------------------------------------ggcactgtatc---tcaaaatatctacacctaaatgttttttctattgaaggttct-----tgttatggt-tattacttggcacttacatcaattgcaattttctt-cagCCAAACATATGGAATTCTTGGGAGTTCAAGTGGGATGGATAACTGGACCATGGTTTCTTTCAATTTTCATCAATATGCTTCCATGGGAAAGTGGTCAGGT
                                                                                          |    |||||    |  |||| |  | |      | ||| ||  |    |   | |       || |||| ||| |||  | ||||||||||||| |||   |||| |||| || |||||||| ||| |||||||||| |||| |||| | ||||||||||||||||||||||||||||||||||||||||||||||||||||       
gtttgtatttcaatgatattattactacacttgtccttttgtagcattctgcatttcacattatcttaaaaaaaacatggtcctggtcatgcttttgtattcagttgaaatgttgagatgactttatttgtttgaacacataatgtatcaactttgtggtgtatcactctgtacttacatcaattacaaccctctttcagCAAAGCATATGGATTTCCTGGGAGTTCAGGTGGCATGGGTGACTGGACCATGGTTTCTTTCAATTTTCATCAATATGCTTCCATGGGAAAGTG-------
















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|211448474|gb|FL194336.1|FL194336
EST:     TGACCAACTCGTCCTTGAGGAGGTTGTACGAGAAAGGTTCCCTAAATTGG                         CCAAACATATGGAATTCTTGGGAGTTCAAGTGGGATGGATAACTGGACCAT
genomic: TGACCAACTCGTCCTTGAGGAGGTTGTACGAGAAAGGTTCCCTAAATTGGgtatgttttc ... ttttcttcagCCAAACATATGGAATTCTTGGGAGTTCAAGTGGGATGGATAACTGGACCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaggttcttgttatggttattacttggcacttacatcaattgcaattttcttcagCCAAACATATGGAATTCTTGGGAGTTCAAGTGGGATGGATAACTGGACCATGGTTTCTTTCAATTTTCATCAATATGCTTCCATGGGAAAGTGGTCAGGT
                           cacttac  putative branch site (score: 2)
                                             ttttcttc  putative PPT
                ttattactt  TA-rich tract