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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctactgatgtttctttacactaaaatttatctggctctaatcttaattttttttaatgatctctttgaattgtggcacttactaacacctatttctccagCAAACAAGTTCTCGCAGGCTATAGAGCTTTACAGTCAAGCCATTGAGCTGAATAGTTCAAATGCAGTTTACTGGGCAAACCGTGCATTTGCACACACAAA

Basic information

species Zea mays
transcript GRMZM2G126435_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126435_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g11550.1 (Oryza sativa), 3'ss of exon 2
-ctactgatgtttctttacactaaaatttatctggctctaatcttaattttttttaatgatctctttgaattgtggcacttactaacacctattt-ctccagCAAACAAGTTCTCGCAGGCTATAGAGCTTTACAGTCAAGCCATTGAGCTGAATAGTTCAAATGCAGTTTACTGGGCAAACCGTGCATTTGCACACACAAA
   |   | | |||        |   | |||   ||  |  ||  ||  |||| ||| |   | |||   | ||||    |  |   |  ||||| || |||||||||||||||| | |||||||||||| || ||||||||||||||||| || |||||||||||||||||||||||||||||||||||||| || |||||
aaaataaaagattcgggctctcatgctgtatgcagcatt--tcccaaagttttctaaaggaatatttccctggtggataatctttctatttattttctgcagCAAACAAGTTCTCCCTGGCTATAGAGCTCTATAGTCAAGCCATTGAGCTAAACAGTTCAAATGCAGTTTACTGGGCAAACCGTGCATTTGCTCATACAAA
















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|71769984|gb|DR967921.1|DR967921
EST:     TGTGCAAAGGGCTGAGGAATTTAAACTTAAGGCGAATGATGCCTTCAAGG                         CAAACAAGTTCTCGCAGGCTATAGAGCTTTACAGTCAAGCCATTGAGCTGA
genomic: TGTGCAAAGGGCTGAGGAATTTAAACTTAAGGCGAATGATGCCTTCAAGGgtgtgtagga ... atttctccagCAAACAAGTTCTCGCAGGCTATAGAGCTTTACAGTCAAGCCATTGAGCTGA
EST: gi|71436892|gb|DR817942.1|DR817942
EST:     TGTGCAAAGGGCTGAGGAATTTAAACTTAAGGCGAATGATGCCTTCAAGG                         CAAACAAGTTCTCGCAGGCTATAGAGCTTTACAGTCAAGCCATTGAGCTGA
genomic: TGTGCAAAGGGCTGAGGAATTTAAACTTAAGGCGAATGATGCCTTCAAGGgtgtgtagga ... atttctccagCAAACAAGTTCTCGCAGGCTATAGAGCTTTACAGTCAAGCCATTGAGCTGA
EST: gi|60359346|gb|DN226319.1|DN226319
EST:     TGTGCAAAGGGCTGAGGAATTTAAACTTAAGGCGAATGATGCCTTCAAGG                         CAAACAAGTTCTCGCAGGCTATAGAGCTTTACAGTCAAGCCATTGAGCTGA
genomic: TGTGCAAAGGGCTGAGGAATTTAAACTTAAGGCGAATGATGCCTTCAAGGgtgtgtagga ... atttctccagCAAACAAGTTCTCGCAGGCTATAGAGCTTTACAGTCAAGCCATTGAGCTGA
EST: gi|93012246|gb|EB637766.1|EB637766
EST:     TGTGCAAAGGGCTGAGGAATTTAAACTTAAGGCGAATGATGCCTTCAAGG                         CAAACAAGTTCTCGCAGGCTATAGAGCTTTACAGTCAAGCCATTGAGCTGA
genomic: TGTGCAAAGGGCTGAGGAATTTAAACTTAAGGCGAATGATGCCTTCAAGGgtgtgtagga ... atttctccagCAAACAAGTTCTCGCAGGCTATAGAGCTTTACAGTCAAGCCATTGAGCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttttttaatgatctctttgaattgtggcacttactaacacctatttctccagCAAACAAGTTCTCGCAGGCTATAGAGCTTTACAGTCAAGCCATTGAGCTGAATAGTTCAAATGCAGTTTACTGGGCAAACCGTGCATTTGCACACACAAA
                                  tactaac  putative branch site (score: 0)
                                          cctatttctcc  CT-rich tract
     ttttaatgat  TA-rich tract