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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTACAAACTGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatttatgctaatacttttttgtgattcacatgtatcactatcactttctgcactaattttcttccaaaaaagattgacagttgctactgttgttgctgacatgattttctctttttag

Basic information

species Zea mays
transcript GRMZM2G099328_T03
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G099328_T02 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os12g40490.1 (Oryza sativa), 5'ss of exon 13
ATTACAAACTGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatttatgctaatactttt--ttgtgattcacatgtatcactatcactttctgcactaattttcttccaaaaaagattgacagttgctactgttgttgctgacatgattttctctttttag
|||||||||||| || ||||| |||||||| ||||||||||| ||||| ||||| |||||||  ||   | |||| ||  || |       | |||  || |   | || ||||  |||        | ||||       ||     |||  ||   |  ||  |       || ||||| | |||
ATTACAAACTGGCTCAATTCTCGCCCATGAAATGATGCATGCTTATCTACGTCTGAAAGgtacatttactctgctcattgttctggcaaacaatcatgtgcacttccattacttcatgccacctccatgttccctttccaatcagt-gttagtaacatctttttt-------ttctctctctctag
















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|44900705|gb|CK827250.1|CK827250
EST:     TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTTTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|31363998|gb|CD448353.1|CD448353
EST:     GCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: GCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|76910058|gb|DV163680.1|DV163680
EST:     TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|14203375|gb|BG837052.1|BG837052
EST:     TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|31364007|gb|CD448362.1|CD448362
EST:     CCATCAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: CCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|31363993|gb|CD448348.1|CD448348
EST:     CTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: CTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|32859029|gb|CD998710.1|CD998710
EST:     TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTTTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|71773668|gb|DR971565.1|DR971565
EST:     TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTTGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTTTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|211535560|gb|FL475981.1|FL475981
EST:     TGGTCCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
EST: gi|31362847|gb|CD447204.1|CD447204
EST:     TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAG                         GATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT
genomic: TGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatt ... ctctttttagGATTCCGAAACCTTAGTATTGAGGTTGAAGAAGGCATCTGCCAAGTTCTAT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTACAAACTGGTTCCATTCTTGCCCATGAGATGATGCATGCATATCTTCGTCTCAAAGgtaatttatttatgctaatacttttttgtgattcacatgtatcactatcactttctgcactaattttcttccaaaaaagattgacagttgctactgttgttgctgacatgattttctctttttag

- - - - - - - - - - - - - - GAGATG