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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactttctactgattgcctcttcttttatttgctatgggtagagttgttccagtagtatgtggccatgacgtggccccgcgagtgtgccagtggttgaagcgcaatgctgggaattttacgcctctccatgcactgcagGGCGGCGCGGTCCCGGTGAGCGAGATGTTCGGCACGTTTGCGCTCTCCGTCGGCGCGGCGGTACGCGGCGGTCCTTGGCA

Basic information

species Zea mays
transcript GRMZM2G163683_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G163683_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g48880.1 (Oryza sativa), 3'ss of exon 1
gtaactttctactgattgcctcttcttttatt-tgctatg-ggtagagttgttccagtagtatgtggccatgacgtggccccgcgagtgtgccagtggttgaagcgcaatgctgggaattttacgcctctccatgcactgcagGGCGGCGCGGTCCCGGTGAGCGAGATGTTCGGCACGTTTGCGCTCTCCGTCGGCGCGGCGGTACGCGGCGGTCCTTGGCA
|||  | ||  ||  | || ||| |||  ||| |  |||| ||   |||  |  | ||| | | || |    | |  | |||   | | |   ||||    ||  |   |     |   || |   || | |  ||  |||||||||| |  || ||| ||| ||||||||| |||||||||||||||||||||||||| |||                    
gtacatctcctct--tcgcttctacttccattatagtatgcggagaagtcatcgccgtaatttttgccggacaagatgtcccagtaattta--agtgtgcaaatggttgttgaccgtggttgatatctgtgcg-gccgtgcagGGCGGGGATGTGCCGATGACCGAGATGTTTGGCACGTTTGCGCTCTCCGTCGGCGCAGCG--------------------
















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|211086400|gb|FL335520.1|FL335520
EST:     CGTCCATGGCCGTCGCCGCCGTGTACTATCGCTTCAGCTGGCAAATGGAG                         GGCGGCGCGGTCCCGGTGAGCGAG
genomic: CGTCCATGGCCGTCGCCGCCGTGTACTATCGCTTCAGCTGGCAAATGGAGgtaactttct ... tgcactgcagGGCGGCGCGGTCCCGGTGAGCGAG
EST: gi|71447017|gb|DR828067.1|DR828067
EST:     CGTCCATGGCCGTCGCCGCCGTGTACTATCGCTTCAGCTGGCAAATGGAG                         GGCGGCGCGGTCCCGGTGAGCGAGATGTTCGGCACGTTTGCGCTCTCCGTC
genomic: CGTCCATGGCCGTCGCCGCCGTGTACTATCGCTTCAGCTGGCAAATGGAGgtaactttct ... tgcactgcagGGCGGCGCGGTCCCGGTGAGCGAGATGTTCGGCACGTTTGCGCTCTCCGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgccagtggttgaagcgcaatgctgggaattttacgcctctccatgcactgcagGGCGGCGCGGTCCCGGTGAGCGAGATGTTCGGCACGTTTGCGCTCTCCGTCGGCGCGGCGGTACGCGGCGGTCCTTGGCA
                                     cctctccat  CT-rich tract
                            aatttta  TA-rich tract