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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcacccacactaacactagtgacgaattcaccctgtcagccactgccaaatgcttaatgctgatagtctgattgatactcactggcaatgccatgaatctgcgttcacagGATGCTCCTTTACGAGTTCGTCGAAAACGGGAACCTGGAGCAGTGGCTGCACGGCGACGTCGGTCCGGTCAGCCCTTTGACCTGGGAAATACGGATGAAG

Basic information

species Zea mays
transcript GRMZM2G478876_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G478876_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g12680.2 (Oryza sativa), 3'ss of exon 2
gtgagcacccacactaacactag-----tgacgaattcaccctgtcagccact--gccaaatgcttaatgctgatagtctgattgatactcactggcaatgccatgaa---tctgcgttcacagGATGCTCCTTTACGAGTTCGTCGAAAACGGGAACCTGGAGCAGTGGCTGCACGGCGACGTCGGTCCGGTCAGCCCTTTGACCTGGGAAATACGGATGAAG
|| ||      ||| | | ||        || || |||      | |   | |  ||  ||     || |  |        |  ||| |  |    ||||||||| |    || | | ||||||||||||| | |||||||||||||| ||||| ||||||||||||||||||||||||||||| || |||||||||||  |||| ||||| || |||||||||
gtaagtgatgccaccagctctgaatcctcgatgagttctgagcattaataattcagcagaagtgaaaacgggggacaatgcagcgatgcaaataatcaatgccatcatcactccgtgctcacagGATGCTCGTGTACGAGTTCGTCGAGAACGGCAACCTGGAGCAGTGGCTGCACGGCGACGTTGGCCCGGTCAGCCCGCTGACATGGGACATTCGGATGAAG
















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|211050907|gb|FL037788.1|FL037788
EST:     CACAAGCACCTTGTCGGTCTCATCGGGTACTGCGCAGAAGGCCCTAAACG                         GATGCTCCTTTACGAGTTCGTCGAAAACGGCAACCTGGAGCAGTGGCTGCA
genomic: CACAAGCACCTTGTCGGTCTCATCGGGTACTGCGCAGAAGGCCCTAAACGgtgagcaccc ... gcgttcacagGATGCTCCTTTACGAGTTCGTCGAAAACGGGAACCTGGAGCAGTGGCTGCA
EST: gi|211050910|gb|FL037791.1|FL037791
EST:     CACAAGCACCTTGTCGGTCTCATCGGGTACTGCGCAGAAGGCCCTAAACG                         GATGCTCCTTTACGAGTTCGTCGAAAACGGCAACCTGGAGCAGTGGCTGCA
genomic: CACAAGCACCTTGTCGGTCTCATCGGGTACTGCGCAGAAGGCCCTAAACGgtgagcaccc ... gcgttcacagGATGCTCCTTTACGAGTTCGTCGAAAACGGGAACCTGGAGCAGTGGCTGCA
EST: gi|211050908|gb|FL037789.1|FL037789
EST:     CACAAGCACCTTGTCGGTCTCATCGGGTACTGCGCAGAAGGCCCTAAACG                         GATGCTCCTTTACGAGTTCGTCGAAAACGGCAACCTGGAGCAGTGGCTGCA
genomic: CACAAGCACCTTGTCGGTCTCATCGGGTACTGCGCAGAAGGCCCTAAACGgtgagcaccc ... gcgttcacagGATGCTCCTTTACGAGTTCGTCGAAAACGGGAACCTGGAGCAGTGGCTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgctgatagtctgattgatactcactggcaatgccatgaatctgcgttcacagGATGCTCCTTTACGAGTTCGTCGAAAACGGGAACCTGGAGCAGTGGCTGCACGGCGACGTCGGTCCGGTCAGCCCTTTGACCTGGGAAATACGGATGAAG
                    tactcac  putative branch site (score: 1)
               attgata  TA-rich tract