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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggacctattttcccatggaccatgtttctggacttctgatatccccaagataacaaaactttgttgatagtcagggattattgcacgtgtggttattttttagtcttgtaattgcttcagagtttagtcaatactgactgctctcttgcgctttttcagGATGCTGTAAAGGAGATCGATGACTAGAATAGTAGGATTCTCTAGTAGAAAGGGCCCTCTGGAGTCTGATAGTATACTAGCACATCGTACATCACTGGCA

Basic information

species Zea mays
transcript GRMZM2G011479_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G011479_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g66170.1 (Oryza sativa), 3'ss of exon 6
gtgaggacctattttcccatggaccatgtttctggacttctgatatccccaagataacaaaactttgttgatagtcagggattattgcacgtgtggttattttttagtcttgtaattgcttcagagtttagtcaatactgactgctctc--ttgcgct-ttttcagGATGCTGTAAAGGAGATCGATGACTAGAATAGTAGGATTCTCTAGTAGAAAGGGCCCTCTGGAGTCTGATAGTATACTAGCACATCGTACATCACTGGCA---
||   ||| |  | |    |    ||  |  ||| ||   ||  || |    |  |  |    ||||   |||  |     ||||| |    ||||| | |||    |    |   |  ||        || |||| || |||| |||    |  | | ||| |||||||||||||||||||||||||| |||||| |||||||||||||||| || | | |||   ||   |  ||| |||||||| ||| ||||||||         
gtattgacttgctatgatctatcacacata-ctgaacaaatgggattc----ggcagta----tttgaacatatgc-----ttatttcgttagtggtcactttgggtttcaatttctctttttcgaa--agccaattctaactgttcttaactatgttatttgcagGATGCTGTAAAGGAGATCGATGAATAGAATGGTAGGATTCTCTAGTAAAATGCGGCCTTCTGA---TACTAGCATACTAGCCCATTGTACATCATCACTGTCA
















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|60394686|gb|DN227556.1|DN227556
EST:     GGTTATTGTTTACGGCCATGGCTGCCGCTTATGTAACAAGGCTCGCAAAG                         GATGCTGTAAAGGAGATCGATGACTAGAATAGTAGGATTCTCTAGTAGAAA
genomic: GGTTATTGTTTACGGCCATGGCTGCCGCTTATGTAACAAGGCTCGCAAAGgtgaggacct ... gctttttcagGATGCTGTAAAGGAGATCGATGACTAGAATAGTAGGATTCTCTAGTAGAAA
EST: gi|86469146|gb|DY235516.1|DY235516
EST:     GGTTATTGTTTACGGCCATGGCTGCCGCTTATGTAACAAGGCTCGCAAAG                         GATGCTGTAAAGGAGATCGATGACTAGAATAGTAGGATTCTTTAGTAGAAA
genomic: GGTTATTGTTTACGGCCATGGCTGCCGCTTATGTAACAAGGCTCGCAAAGgtgaggacct ... gctttttcagGATGCTGTAAAGGAGATCGATGACTAGAATAGTAGGATTCTCTAGTAGAAA
EST: gi|24934419|gb|CA452637.1|CA452637
EST:     GGTTATTGTTTACGGCCATGGCTGCCGCTTATGTAACAAGGCTCGCAAAG                         GATGCTGTAAAGGAGATCGACGACTAGAATAGTAGGATTCTTTAGTAGAAA
genomic: GGTTATTGTTTACGGCCATGGCTGCCGCTTATGTAACAAGGCTCGCAAAGgtgaggacct ... gctttttcagGATGCTGTAAAGGAGATCGATGACTAGAATAGTAGGATTCTCTAGTAGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtaattgcttcagagtttagtcaatactgactgctctcttgcgctttttcagGATGCTGTAAAGGAGATCGATGACTAGAATAGTAGGATTCTCTAGTAGAAAGGGCCCTCTGGAGTCTGATAGTATACTAGCACATCGTACATCACTGGCA
                           tactgac  putative branch site (score: 1)
                                    ctctcttgcgcttttt  putative PPT
                                               tttttca  TA-rich tract