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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcccttgtttctcttcttcgtctccgtcgctgtttgctcggtgtcttactggcttagactcgtttgcatatttttttttaaatttcagttcttgattgactcttagCTCTGCCGCGGCATGGAGGTGGAGGCTCTGGAGAAGAAGGGGCACGCAGCTTTTGCCAAGGCGATGAAATCTTTCGGCTCTTCCGAGCGGTACAAGCGAT

Basic information

species Zea mays
transcript GRMZM5G843914_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G843914_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g55890.1 (Oryza sativa), 3'ss of exon 1
gtgagcccttgtttctcttcttcgtctccgtcgctg-tttgctcg-------gtgtct--tactggcttagactcgtttgcatatttttttttaaa--------tttcagttcttgattgactcttagCTC--TGCCGCGGCATGGAGGTGGAGGCTCTGGAGAAGAAGGGGCACGCAGCTTTTGCCAAGGCGATGAAATCTTTCGGCTCTTCCGAGCGGTACAAGCGAT
|| ||  ||  | |||  |  |  | ||    |||  ||||| |         || ||  |||||  | |    |  |||| ||   | || |           ||||||||||||||||  || || ||   ||||  |  ||||||||||||||  ||||||||||||| |||  ||| ||||| ||||| || || |||||||| ||                    
gtaagttctactatcttgttcttatttctcctgctcctttgcccccaaggatatggctactactgcttgatgtcctgttgcttagagtgttcttggctggttgctttcagTTCTTGATTGGTTCATACCTTGGTGCCAAGAAATGGAGGTGGAGGCGATGGAGAAGAAGGGACACAGAGCCTTTGCTAAGGCAATTAAGTCTTTCGGTTC--------------------
















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|211540834|gb|FL337850.1|FL337850
EST:     TGCTACCGAGTTTCCGGGCGCTGACCACTGGGCAACTACAGCTGATCTCT                         CTCTGCCGCGGCATGGAGGTGGAGGCTCTGGAGAAGAAGGGGCACGCAGCT
genomic: TGCTACCGAGTTTCCGGGCGCTGACCACTGGGCAACTACAGCTGATCTCTgtgagccctt ... tgactcttagCTCTGCCGCGGCATGGAGGTGGAGGCTCTGGAGAAGAAGGGGCACGCAGCT
EST: gi|149090325|gb|EE179631.2|EE179631
EST:     TGCTACCGAGTTTCCGGGCGCTGACCACTGGGCAACTACAGCTGATCTCT                         CTCTGCCGCGGCATGGAGGTGGAGGCTCTGGAGAAGAAGGGGCACGCAGCT
genomic: TGCTACCGAGTTTCCGGGCGCTGACCACTGGGCAACTACAGCTGATCTCTgtgagccctt ... tgactcttagCTCTGCCGCGGCATGGAGGTGGAGGCTCTGGAGAAGAAGGGGCACGCAGCT
EST: gi|101392106|gb|EB817980.1|EB817980
EST:     TGCTACCGAGTTTCCGGGCGCTGACCACTGGGCAACTACAGCTGATCTCT                         CTCTGCCGCGGCATGGAGGTGGAGGCTCTGGAGAAGAAGGGGCACGCAGCT
genomic: TGCTACCGAGTTTCCGGGCGCTGACCACTGGGCAACTACAGCTGATCTCTgtgagccctt ... tgactcttagCTCTGCCGCGGCATGGAGGTGGAGGCTCTGGAGAAGAAGGGGCACGCAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttagactcgtttgcatatttttttttaaatttcagttcttgattgactcttagCTCTGCCGCGGCATGGAGGTGGAGGCTCTGGAGAAGAAGGGGCACGCAGCTTTTGCCAAGGCGATGAAATCTTTCGGCTCTTCCGAGCGGTACAAGCGAT
                                          gattgac  putative branch site (score: 3)
                                                ctctt  CT-rich tract
                atatttttttttaaat  TA-rich tract