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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_T04
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|71298470|gb|DR785213.1|DR785213
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
EST: gi|211047245|gb|FL354513.1|FL354513
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
EST: gi|71766035|gb|DR963972.1|DR963972
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
EST: gi|78108131|gb|DV526549.1|DV526549
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
EST: gi|101383848|gb|EB813979.1|EB813979
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
EST: gi|211096929|gb|FL366862.1|FL366862
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
EST: gi|71319933|gb|DR796728.1|DR796728
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
EST: gi|148973503|gb|EE024603.2|EE024603
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
EST: gi|74241324|gb|DT649238.1|DT649238
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
EST: gi|71330009|gb|DR801742.1|DR801742
EST:     CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAG                         TCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
genomic: CCGCTGCCGACGACGATGTCAAGCTCGAATCCTTCCTCCAATGGCTCCAGgtcgccccct ... tccgccgcagTCCAACGGCGCCGACCTCCGCAGCTGCACGATCCGCGCATGCGGCGGCAAG
EST: gi|37421956|gb|CF648682.1|CF648682
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