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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgccacacactatcttatcccccatcttcctgcgcgcgacccataaccaatcccaagtagacgctgcgcattgtgtcagcctgccatggcttgacattgatagcgtcgtcttctgatgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCATCATGCGCCAGATCGCGTCTTGCATCACCTACCTCCCCTGCCTCGACGAG

Basic information

species Zea mays
transcript GRMZM2G047143_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G047143_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT3G25980.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgcgccacacactatcttatcccccatcttcctgcgcgcgacccataaccaatcccaagtagacgctgcgcattgtgtcagcctgccatggcttgacattgatagcgtcgtcttctgatgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCATCATGCGCCAGATCGCGTCTTGCATCACCTACCTCCCCTGCCTCGACGAG
                         ||  ||  ||            |  |  || |||||      ||    || | |  |  |  | | | || |   || || |      || ||    |  | || |     | ||||||||| || |||||||||||||||||||| || || || ||| | ||| | || ||  |  | || ||| | || || || || || 
-----------------------gtcagttttttgtttttagtgttgatactttcgcaagt-----ttgtttgttttctttgatt--ctttgtttcattatgttatc-----tttatggaactttttagTGTGTCGAGGGAGAAGAGTGATAAGGAGATCATGAGGGAGATTCAAGCTATTATGAGACAGGTTGCTTCAAGTGTTACTTACTTGCCTTGTCTTGATGAA
















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|94475185|gb|EB704143.1|EB704143
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTGGAGAAGGG                         GGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|94475186|gb|EB704144.1|EB704144
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgtcagcctgccatggcttgacattgatagcgtcgtcttctgatgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCATCATGCGCCAGATCGCGTCTTGCATCACCTACCTCCCCTGCCTCGACGAG
                                       ttctgat  putative branch site (score: 3)
                        attgata  TA-rich tract