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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaacctctattactttatgtacagcgttaacgtttttagatctccaatgcggataacctaacattatattctctagTTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCACGAGTCTATCTACTGTGAG

Basic information

species Zea mays
transcript GRMZM2G075488_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G075488_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os06g06820.1 (Oryza sativa), 3'ss of exon 5
----------------------------------------------gtgaaacctctatt-actttatgtacagcgttaacgtttttagatctccaatgcggataacctaacattata---ttctctagTTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCACGAGTCTATCTACTGTGAG
                                               |       ||||| |    |||| |    |||       |||   | | | | || ||| |||||||||||   || |  |||| || | |||| ||| |||||||||||||||||||||||| |||||||| ||||||||||| ||| ||
gtaaactgtccaccatgcataaatcataatgctggacttttagatcttcgcgttcctattgaagcaatgttctctattatttgcactagggattccaagtgg-taatctaacattataactttttgcagTTTGAGAGGTGGTTAGGTTTTGATCAAAATCCTCTTTATGCTCTCTTGCATGAGTCTATCTATTGTCAG
















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|32928448|gb|CF033260.1|CF033260
EST:     ACTTGTCGCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAG                         TTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGTAC
genomic: ACTTGTCGCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAGgtgaaacctc ... tattctctagTTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC
EST: gi|32928122|gb|CF032934.1|CF032934
EST:     ACTTGTCGCTGGAGCTAAAAAGAGGATAGGCTATTACTTCTTAAAAGAG                         TTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC
genomic: ACTTGTCGCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAGgtgaaacctc ... tattctctagTTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC
EST: gi|67042357|gb|CO468612.1|CO468612
EST:     TACTTTTCCCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAG                         TTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC
genomic: TACTTGTCGCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAGgtgaaacctc ... tattctctagTTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC
EST: gi|60358578|gb|DN225551.1|DN225551
EST:     TACTTGTCGCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAG                         TTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC
genomic: TACTTGTCGCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAGgtgaaacctc ... tattctctagTTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC
EST: gi|32928342|gb|CF033154.1|CF033154
EST:     ACTTGTCGCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAG                         TTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC
genomic: ACTTGTCGCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAGgtgaaacctc ... tattctctagTTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC
EST: gi|211492404|gb|FL232704.1|FL232704
EST:     TACTTGTCGCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAG                         TTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC
genomic: TACTTGTCGCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAGgtgaaacctc ... tattctctagTTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC
EST: gi|67011936|gb|CO440685.1|CO440685
EST:     TACTTGTCGCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAG                         TTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC
genomic: TACTTGTCGCTGGAGCTAAAAAGAGGATAAGCTATTACTTCTTAAAAGAGgtgaaacctc ... tattctctagTTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagcgttaacgtttttagatctccaatgcggataacctaacattatattctctagTTCGAAATGTGGCTAGATTTTGATCAAAATCCTCTTTATGCCCTCTTGCACGAGTCTATCTACTGTGAG
                                  acctaac  putative branch site (score: 2)
                                             tattctct  putative PPT
                                     taacattatattct  TA-rich tract