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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttactcagtttacttcatgtctttagtgctgttagttttcttatgaattcatgcagttaatgtgtgacactttctggtttaatttgtttttacttctagATAAGGATATGCATTTGGAGGAGGATGAGCAACTTGCAAGAGCTATCCAGGAAAGTTTGAATGTTGAGTCACCCCCTCGCAGAAATGGCAGTGCCAATGG

Basic information

species Zea mays
transcript GRMZM2G017845_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017845_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os06g08400.1 (Oryza sativa), 3'ss of exon 3
-gttactcagtt-tacttcatg-tctttagtgctgttagttttcttatgaattcatgcagttaatgtgtgacactttctggtttaatttgtttttact--tctagATAAGGATATGCATTTGGAGGAGGATGAGCAACTTGCAAGAGCTATCCAGGAAAGTTTGAATGTTGAGTCACCCCCTCGCAGAAATGGCAGTGCCAATGG
  | |  || || ||| ||||| | ||  |||    |  |      |||||| |||||| ||||  ||  | ||||| || ||| ||||  ||| |||  |||||| ||||| |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||| || || |||||      ||  | || ||| | 
tatcaagcaattctacatcatggtattctgtgtctatgatcg----atgaatccatgcatttaacatgcaatactttttg-tttcattttctttcactcatctagAAAAGGACATGCATTTGGAGGAGGATGAACAACTTGCAAGAGCTATCCAGGAAAGTTTGAATGTTGAATCGCCTCCTCGTGCTCGTGAAAATGGCAACGC
















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|31355012|gb|CD439369.1|CD439369
EST:     TATAGCGCTCTCTCTATCGGAAGAGGAGCAAAGAAAGGAAAAGGCAATAG                         ATAAGGATATGCATTTGGAGGAGGATGAGCAACTTGCAAGAGCTATCCAGG
genomic: TATAGCGCTCTCTCTATCGGAAGAGGAGCAAAGAAAGGAAAAGGCAATAGgttggtatgc ... ttacttctagATAAGGATATGCATTTGGAGGAGGATGAGCAACTTGCAAGAGCTATCCAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattcatgcagttaatgtgtgacactttctggtttaatttgtttttacttctagATAAGGATATGCATTTGGAGGAGGATGAGCAACTTGCAAGAGCTATCCAGGAAAGTTTGAATGTTGAGTCACCCCCTCGCAGAAATGGCAGTGCCAATGG
                                gtttaat  putative branch site (score: 4)
                                      tttgtttttacttct  CT-rich tract
                                 tttaatttgtttttac  TA-rich tract