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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatgagtttggggatttgctatgaaccttctaattccccttctgtttttttattagttggattggagatggatttgacgctcctgttcctattctgatctctgcagGAAGGGAAGCCCCTAGTGCTGAACGTGGTCAGGCGCGCCGAGCAAATGTTGATCAATAATCCGTAAGTGTCATGTGAAATCCATATGACCCGCTTGATTT

Basic information

species Zea mays
transcript GRMZM2G094712_T05
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G094712_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g55540.2 (Oryza sativa), 3'ss of exon 2
gtaagatgagtttggggatttgctatgaaccttctaattccccttctgtttttttattagttggattggagatggatttgacgctcctgttcctattctgatctctgcagGAAGGGAAGCCCCTAGTGCTGAACGTGGTCAGGCGCGCCGAGCAAATGTTGATCAATAATCCGTAAGTGTCATGTGAAATCCATATGACCCGCTTGATTT
||||| ||  || ||||| || ||||  |  || |     | | |  || ||||      ||||||||| | ||||||||||  ||   ||  |  |||||||   | |||||||||||||||| |||||||| |||||||||||||| ||||| ||| ||||||| || ||                                      
gtaaggtgttttgggggaatttctattgattttttg----ctccttcgtattttgg---attggattggtggtggatttgac-ttcgattttgtggtctgatcggagtaggaagggaagCCCCTGGTGCTGAATGTGGTCAGGCGCGCTGAGCAGATGCTGATCAACAACCC--------------------------------------
















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|211266228|gb|FL159045.1|FL159045
EST:     ATCCCAGCCCCGTGAAGGTCAACCTCGGGGTCGGCGCCTACCGGACCGAG                         GAAGGGAAGCCCCTAGTGCTGAACGTGGTCAGGCGCGCCGAGCAAAT
genomic: ATCCCAGCCCCGTGAAGGTCAACCTCGGGGTCGGCGCCTACCGGACCGAGgtaagatgag ... atctctgcagGAAGGGAAGCCCCTAGTGCTGAACGTGGTCAGGCGCGCCGAGCAAAT
EST: gi|87153316|gb|DY398105.1|DY398105
EST:     ATCCCAGCCCCATGAAGGTCAACCTCGGGGTTGGCGCCTACCGGACCGAG                         GAAGGGAAGCCCCTAGTGCTGAACGTGGTCAGGCGCGCCGAGCAAATGTTG
genomic: ATCCCAGCCCCGTGAAGGTCAACCTCGGGGTCGGCGCCTACCGGACCGAGgtaagatgag ... atctctgcagGAAGGGAAGCCCCTAGTGCTGAACGTGGTCAGGCGCGCCGAGCAAATGTTG
EST: gi|19350709|gb|BM895241.1|BM895241
EST:     ATCCCAGCCCCATGAAGGTCAACCTCGGGGTTGGCGCCTACCGGACCGAG                         GAAGGGAAGCCCCTAGTGCTGAACGTGGTCAGGCGCGCCGAGCAAATGTTG
genomic: ATCCCAGCCCCGTGAAGGTCAACCTCGGGGTCGGCGCCTACCGGACCGAGgtaagatgag ... atctctgcagGAAGGGAAGCCCCTAGTGCTGAACGTGGTCAGGCGCGCCGAGCAAATGTTG
EST: gi|22491232|gb|BU051155.1|BU051155
EST:     ATCCCAGCCCCATGAAGGTCAACCTCGGGGTTGGCGCCTACCGGACCGAG                         GAAGGGAAGCCCCTAGTGCTGAACGTGGTCAGGCGCGCCGAGCAAATGTTG
genomic: ATCCCAGCCCCGTGAAGGTCAACCTCGGGGTCGGCGCCTACCGGACCGAGgtaagatgag ... atctctgcagGAAGGGAAGCCCCTAGTGCTGAACGTGGTCAGGCGCGCCGAGCAAATGTTG
EST: gi|16137337|gb|BI894202.1|BI894202
EST:     ATCCCAGCCCCATGAAGGTCAACCTCGGGGTTGGCGCCTACCGGACCGAG                         GAAGGGAAGCCCCTAGTGCTGA
genomic: ATCCCAGCCCCGTGAAGGTCAACCTCGGGGTCGGCGCCTACCGGACCGAGgtaagatgag ... atctctgcagGAAGGGAAGCCCCTAGTGCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attagttggattggagatggatttgacgctcctgttcctattctgatctctgcagGAAGGGAAGCCCCTAGTGCTGAACGTGGTCAGGCGCGCCGAGCAAATGTTGATCAATAATCCGTAAGTGTCATGTGAAATCCATATGACCCGCTTGATTT
                                        ttctgat  putative branch site (score: 3)
                                              tctctgc  CT-rich tract