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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatgcgcgctccaattcctcctcccggctggcttgcgagagagcgagcattatggagctgatttttctctctctttaattttcattttctggcgtgtctgtgcagCCGAAGCCGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTCGGCCTTGCCCCCGGCGGGGAGCCCTTCGTGGCGTGCAACG

Basic information

species Zea mays
transcript GRMZM2G028353_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G028353_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g24190.1 (Oryza sativa), 3'ss of exon 1
gtacatgcgcgc--tccaattcctcctcccggctggcttgcgagagagcgagcattatggagctgatttttctctctctttaattttcattttctggcgtgtctgtgcagCCGAAGCCGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTCGGCCTTGCCCCCGGCGGGGAGCCCTTCGTGGCGTGCAACG---
|||| || | ||  | |   |  |  |  |  ||   ||     |         || |||  |||||||   | | |      ||||  ||    | ||   | | ||||||||||||||  | ||   |||||||||||||||||||||||||||||||||||||||| || ||   ||||| ||| ||||| ||||||||||||||||   
gtacgtgtgagcggtgccgctgattttttcttctttttttttttaatttt----ttttgggtctgatttcgtttttt------tttttgttcgtggccg---ccgcgcagCCGAAGCCGCTCCGGC---AGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTGGGGCTCAACCCCGACGGCGAGCCGTTCGTGGCGTGCAACGAGT
















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|211539098|gb|FL044734.1|FL044734
EST:     CCCACAACCGCAACGAGCTCGTCGTCATACGTCGCGACGGCGATCCCGGG                         CCGAAGCCGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATACGTCGCGACGGCGATCCCGGGgtacatgcgc ... gtctgtgcagCCGAAGCCGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatggagctgatttttctctctctttaattttcattttctggcgtgtctgtgcagCCGAAGCCGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTCGGCCTTGCCCCCGGCGGGGAGCCCTTCGTGGCGTGCAACG
                      ctttaat  putative branch site (score: 4)
                     tctttaattttcattt  TA-rich tract