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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctcccccttgcccaatcctcagatctgcctttccctgggtgattggattgcgaagtaataatatggtattgattcacatgtgtgatctccctgggttgtatgtggatgcgcagGTGGATTTGGAGGGAACGTTGGGCATGACCCGCATGTCCTCTACACGCTTAGCGCCGTGCAGGTCCTCTGCCTTTTCGATCGGCTCGATGTCCTTGACGT

Basic information

species Zea mays
transcript GRMZM2G124557_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G124557_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g40140.1 (Oryza sativa), 3'ss of exon 2
----------------------gtacctcccccttgcccaatcctcagatctgcctttccctg-------ggtgattggat---tgcgaagtaataatatggtattga-ttcacatgtgtgatctccctgggtt-gtatgtggatgc-gcagGTGGATTTGGAGGGAACGTTGGGCATGACCCGCATGTCCTCTACACGCTTAGCGCCGTGCAGGTCCTCTGCCTTTTCGATCGGCTCGATGTCCTTGACGT
                      | |        |||    ||     |||      ||    |       |||  ||||||   || || |  ||  | || | |||| || |  |||| | |         || | || ||| ||  ||||||||||| || || ||||||||||||||| ||||||||||||||||||| ||||||||||||||||| ||||| || |||||||| || |  || || ||
gtaccacgagaaggagggggtggaattgattgattgattgattgattgattgattgttgttggtggtggtggtctttggatccttgagaggagatg-tgtgttcttgacttgatctgtgcgtttggttcatcttcggatttgggtgttgcagGTGGATTCGGGGGAAACGTTGGGCATGACGCGCATGTCCTCTACACGCTCAGCGCCGTGCAGGTCCTGTGCCTCTTTGATCGGCTTGACGCTCTCGATGT
















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|19436989|gb|BM953399.1|BM953399
EST:     TGCCGCCGAGGTCGTCGACTGGATCATGTCCTGCTACCACCCCGAATCTG                         GTGGATTTGGAGGGAACGTTAGGCATGACCCGCATGTCCTCTACACGCTTA
genomic: TGCCGCCGAGGTCGTCGACTGGATCATGTCCTGCTACCACCCCGAATCTGgtacctcccc ... ggatgcgcagGTGGATTTGGAGGGAACGTTGGGCATGACCCGCATGTCCTCTACACGCTTA
EST: gi|76910998|gb|DV164124.1|DV164124
EST:     TGCCGCCGAGGTCGTCGACTGGATCATGTCCTGCTACCACCC-GAATCTG                         GTGGATTTGGAGGGAACGTTGG
genomic: TGCCGCCGAGGTCGTCGACTGGATCATGTCCTGCTACCACCCCGAATCTGgtacctcccc ... ggatgcgcagGTGGATTTGGAGGGAACGTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatatggtattgattcacatgtgtgatctccctgggttgtatgtggatgcgcagGTGGATTTGGAGGGAACGTTGGGCATGACCCGCATGTCCTCTACACGCTTAGCGCCGTGCAGGTCCTCTGCCTTTTCGATCGGCTCGATGTCCTTGACGT
        tattgat  putative branch site (score: 3)
        tattgatt  TA-rich tract