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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaggggtctggactctcagttattttttgtgatgctagattccagggattgtcttttcagaaatctagagctaataattgtacgtgcatttgcatacagGCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTTCTCGTACCACCAGAACTAGAGTTCCTAGTTGGGCCAATCTCGTTCTCTG

Basic information

species Zea mays
transcript GRMZM2G179696_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179696_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g44970.1 (Oryza sativa), 3'ss of exon 1
ttaggggtctggactctcagttattttttgtgatgctagattcca-gggattgtcttttcagaaatctagagctaat--aattgta-cgtgcatttgcatacagGCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTTCTCGTACCACCAGAACTAGAGTTCCTAGTTGGGCCAATCTCGTTCTCTG
    |  |||||  ||  | |||   |     |  |||||   ||  |||  ||   |||| | ||| |    | |   || |||  | ||||    ||| ||||| ||||||| ||| |||||||| || |||||  |||| |||| ||||||| |||||||| ||||||| ||||| || |||||||||||||| |||||||
----gtttctgggttcatatttagcatactacagtctagaggacacaggacagtggcttcaaatatcaaagtttgagcaaaatgtgtcttgcacccacatgcagGCCTTTGAAGCAGCATGGGCTGCAGCGTGCAAGCAGGGAGCATCTACAGTTGTCGTACCATCAGAACTTGAGTTTCTTGTTGGGCCAATCTCATTCTCTG
















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|101393354|gb|EB818608.1|EB818608
EST:     ATGTGGTTGATTTTGGAGCCAAGGGTGACGGAGTTACAGACGATACTAAG                         GCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
genomic: ATGTGGTTGATTTTGGAGCCAAGGGTGACGGAGTTACAGACGATACTAAGgtacatagct ... ttgcatacagGCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
EST: gi|148957360|gb|EC903409.2|EC903409
EST:     ATGTGGTTGATTTTGGAGCCAAGGGTGACGGAGTTACAGACGATACTAAG                         GCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
genomic: ATGTGGTTGATTTTGGAGCCAAGGGTGACGGAGTTACAGACGATACTAAGgtacatagct ... ttgcatacagGCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
EST: gi|87157047|gb|DY401836.1|DY401836
EST:     CGGAGTTACAGACGATACTAAG                         GCTTTTGAAGGAGCGTGGACTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
genomic: CGGAGTTACAGACGATACTAAGgtacatagct ... ttgcatacagGCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
EST: gi|87156563|gb|DY401352.1|DY401352
EST:     CGGAGTTACAGACGATACTAAG                         GCTTTTGAAGGAGCGTGGACTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
genomic: CGGAGTTACAGACGATACTAAGgtacatagct ... ttgcatacagGCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
EST: gi|148980217|gb|EE027018.2|EE027018
EST:     ATGTGGTTGATTTTGGAGCCAAGGGTGACGGAGTTACAGACGATACTAAG                         GCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
genomic: ATGTGGTTGATTTTGGAGCCAAGGGTGACGGAGTTACAGACGATACTAAGgtacatagct ... ttgcatacagGCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
EST: gi|211155014|gb|FL170448.1|FL170448
EST:     ATGTGGTTGATTTTGGAGCCAAGGGTGACGGAGTTACAGACGATACTAAG                         GCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGG
genomic: ATGTGGTTGATTTTGGAGCCAAGGGTGACGGAGTTACAGACGATACTAAGgtacatagct ... ttgcatacagGCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGG
EST: gi|26560071|gb|CA832306.1|CA832306
EST:     CGGAGTTACAGACGATACTAAG                         GCTTTTGAAGGAGCGTGGACTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
genomic: CGGAGTTACAGACGATACTAAGgtacatagct ... ttgcatacagGCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
EST: gi|148941522|gb|EC886453.2|EC886453
EST:     ATGTGGTTGATTTTGGAGCCAAGGGTGACGGAGTTACAGACGATACTAAG                         GCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTT
genomic: ATGTGGTTGATTTTGGAGCCAAGGGTGACGGAGTTACAGACGATACTAAGgtacatagct ... ttgcatacagGCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggattgtcttttcagaaatctagagctaataattgtacgtgcatttgcatacagGCTTTTGAAGGAGCGTGGGCTGCTGCCTGCAAAAAGGGGGCATGTACAGTTCTCGTACCACCAGAACTAGAGTTCCTAGTTGGGCCAATCTCGTTCTCTG
                        agctaat  putative branch site (score: 3)
                           taataattgta  TA-rich tract