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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagactctccctctatgccttccaacacaaacaaatgcgctaaggcgctggcacagcagtctttcgagctgacaattggtgtgcgttacaattgcatggcagGATGGTTTTGAAGCTCAAGTGCAGGAAAAGGGCATCCAAGCAGATATGGTTTGCTGTATGCAGCACTTGCAGGCGAGTTGGTTGTTCTCTAGAACTGTAG

Basic information

species Zea mays
transcript GRMZM2G171410_T05
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171410_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g54000.1 (Oryza sativa), 3'ss of exon 4
gtagactctccctctatgccttccaac--acaaacaaatgcgctaaggcgctggcac-agcagtctttcgagctgacaattggtgtgcgttacaattgcatggcagGATGGTTTTGAAGCTCAAGTGCAGGAAAAGGGCATCCAAGCAGATATGGTTTGCTGTATGCAGCACTTGCAGGCGAGTTGGTTGTTCTCTAGAACTGTAG
||| |  |||| ||  | | |||  ||   |||  |||| | ||||    || |||  || ||| | |  |||||||| ||   |||  ||| |         |||||||  |||||||||||| |||| ||||||||||||||||||||||| ||||| ||||||||||| ||||||                            
gtacaacctccatccctcctttcatacttgcaactaaatacactaacattctagcatgagtagtttat--agctgacacttttagtggtttata------caacagGATGACTTTGAAGCTCAAATGCAAGAAAAGGGCATCCAAGCAGATATAGTTTGTTGTATGCAGCATTTGCAG----------------------------
















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|74245952|gb|DT653866.1|DT653866
EST:     ACAGGAGGAAACCTTTCACTGCTGAATTCATCGAGTTGGATCCTTCTGAT                         GATGGTTTTGAAGCTNCA-GTGCAGGAAAAGGGCATCCAAGCAGATATGGT
genomic: ACAGGAGGAAACCTTTCACTGCTGAATTCATCGAGTTGGATCCTTCTGATgtagactctc ... tgcatggcagGATGGTTTTGAAGCT-CAAGTGCAGGAAAAGGGCATCCAAGCAGATATGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggcacagcagtctttcgagctgacaattggtgtgcgttacaattgcatggcagGATGGTTTTGAAGCTCAAGTGCAGGAAAAGGGCATCCAAGCAGATATGGTTTGCTGTATGCAGCACTTGCAGGCGAGTTGGTTGTTCTCTAGAACTGTAG
                   agctgac  putative branch site (score: 3)
                                      ttacaatt  TA-rich tract