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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcgccccctctctctctttcccctgtcccgtccaatcctttctctcctctaaaaccctaatccccgaaccctccctttccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAGGGCTTGGGGGTTTTTTCCACCGCCGCCCCCGAGCCGGGCTCCAACGACG

Basic information

species Zea mays
transcript GRMZM2G078458_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G078458_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g03676.1 (Oryza sativa), 3'ss of exon 1
gtcgccccctctctctctttcccctgtcccgtccaatcctttct-ctcctctaaaaccctaatccccgaaccc-tccctttccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAGGGCTTGGGGGTTTTTTCCACCGCCGCCCCCGAGCCGGGCTCCAACGACG
           |  ||| |   ||  ||| |  ||  || |||| |||   |  |  || ||||||  ||||| |  ||   | |||||| |||||||||||||||||||| ||||||||||||||   |||||| || ||||||  || || || ||||||||||||   ||| | ||| ||| |||||
----------gttgctcctcgtccc-tcctgcacatccccttctactcgcgtgcacgccaaatccctaaacccctggctcctctccgcagGCCAACGGCGCCGACCTCCGCGGCTGCACGATCCGCCGCTGCGGCCGCGAGGGCTACGGCGTCTTCTCCACCGCCGCC---GAGGCCGGCGCCACCGACG
















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|91050911|gb|EB161329.1|EB161329
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
EST: gi|101398762|gb|EB821253.1|EB821253
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
EST: gi|149072634|gb|EE160863.2|EE160863
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatcctttctctcctctaaaaccctaatccccgaaccctccctttccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAGGGCTTGGGGGTTTTTTCCACCGCCGCCCCCGAGCCGGGCTCCAACGACG
                      ccctaat  putative branch site (score: 3)
                                    ccctccctttccgccg  putative PPT
               tctaaaa  TA-rich tract