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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctagctgccaaggaatgcctctcgtctcaccgcacttttacagttcaactaccctgtggacgaggacatgaacttacttggtggaatgcaattttcagTGCGATGGCTTCGGCCAAGGAAGGAAATGGTGCACCGACCAAGAGGACTGCGCTTCATGATCTCTACGAGCTCCAGGGCCTGTCCCCGTGGTACGACAAC

Basic information

species Zea mays
transcript GRMZM2G134256_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134256_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g70170.1 (Oryza sativa), 3'ss of exon 1
ttctagctgccaaggaatgcctctcgtctcaccgcacttttacag----ttcaactaccctgtggacgaggacatgaacttacttggtggaat--gcaattttcagTGCGATGGCTTCGGCCAAGGAAGGAAATGGTGCACCGACCAAGAGGACTGCGCTTCATGATCTCTACGAGCTCCAGGGCCTGTCCCCGTGGTACGACAAC
   ||  |||    | ||  ||      ||   | | || | |||    || |  |         | |      |   | ||||   || | |   |||||||||||||||||||||| |||||||||||||||||||| || || ||||||||  | |||||||||||||| || |||||||| | |||||||||||||||||||
---tacttgcgtgtgcat--cttcgaattctgtggaattgtgcagagtttttagttgtaactcacatgtctcgtttctcatactca-tgaattcgacaattttcagTGCGATGGCTTCTGCCAAGGAAGGAAATGGTGCCCCAACGAAGAGGACAACCCTTCATGATCTCTATGATCTCCAGGGTCAGTCCCCGTGGTACGACAAC
















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|110505274|gb|EE017595.1|EE017595
EST:     GCGCGCCGGGTCCGCGTCTCCGTCGCCGGGCGAGCCAGGAGCCCCATCAT                         TGCGATGGCTTCGGCCAAGGAAGGAAATGGTGCACCGACCAAGAGGACTGC
genomic: GCGCGCCGGGTCCGCGTCTCCGTCGCCGGGCGAGCCAGGAGCCCCATCATgtgcgtgact ... caattttcagTGCGATGGCTTCGGCCAAGGAAGGAAATGGTGCACCGACCAAGAGGACTGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaactaccctgtggacgaggacatgaacttacttggtggaatgcaattttcagTGCGATGGCTTCGGCCAAGGAAGGAAATGGTGCACCGACCAAGAGGACTGCGCTTCATGATCTCTACGAGCTCCAGGGCCTGTCCCCGTGGTACGACAAC
                           aacttac  putative branch site (score: 2)
                                                ttttc  putative PPT
                                              aattttca  TA-rich tract