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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggctgcccaaattgaacatttactatatgtatggtcactaatttgttgcccggtatttgggtgtagtgattcttttttttcgtttttgcagGTCGGCATGATCGAGTTCATTGGAATATTGAATGTCAAGGTGATTGGAGGCACCAACCTAGCCATCAGGGATATGTCAAGCAGTGACCCTTATGTCGTCC

Basic information

species Zea mays
transcript GRMZM2G138349_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G138349_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g10480.3 (Oryza sativa), 3'ss of exon 7
----gtatggctgccc--aaattgaacatt-tactatatg-tatggtcactaatttgttgcccggtatttgggtgtag---tgattcttttttttcgtttttgcagGTCGGCATGATCGAGTTCATTGGAATATTGAATGTCAAGGTGATTGGAGGCACCAACCTAGCCATCAGGGATATGTCAAGCAGTGACCCTTATGTCGTCC
    | |   ||| ||  ||| || | |||  | | | |  ||   |   ||   ||||   ||    || | |  |    |  |  |      |    ||||||||| |||||||| |||||||| ||||||||||||||||||||||  ||||||||||||||||||||||| || |||||||||||||| |||||||| ||||
gtaggcagcactgtcctaaaactgcaaattgcattttgttctaccttacttagcatgttctgcgactcttagattcaaatttagtaatccccgatttgatttgcagGTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGCACCAACCTAGCCATCAGAGACATGTCAAGCAGTGATCCTTATGTAGTCC
















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|211245510|gb|FK953342.1|FK953342
EST:     CT-GAAAACATGCCGGAAATGCTTCTCATTCTGATGGTTCCAAGAGTCAA                         GTCGGCATGATCGAGTTCATTGGAATATTGAATGTCAAGGTGATTGGAGGC
genomic: CTGGAAAACATGCCGGAAATGCTTCTCATTCTGATGGTTCCAAGAGTCAAgtatggctgc ... gtttttgcagGTCGGCATGATCGAGTTCATTGGAATATTGAATGTCAAGGTGATTGGAGGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actaatttgttgcccggtatttgggtgtagtgattcttttttttcgtttttgcagGTCGGCATGATCGAGTTCATTGGAATATTGAATGTCAAGGTGATTGGAGGCACCAACCTAGCCATCAGGGATATGTCAAGCAGTGACCCTTATGTCGTCC
 cactaat  putative branch site (score: 2)
                                 ttcttttttttcgttt  putative PPT
                                    ttttttttcgttttt  TA-rich tract