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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcttgttgtctgaccaaattatcaatctggttacctaggaacagaagagttctttgatatgtattatttcgagcgtttgctaacactccatattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGATGATGGGATTAGGCCAGGGACCACAGCATCTGGATTGGCGAAACTGAAAC

Basic information

species Zea mays
transcript GRMZM5G848768_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G848768_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g57260.1 (Oryza sativa), 3'ss of exon 8
---------------------------------------gcttgttgtctgaccaaattatcaatc--tggttacctaggaacagaagagttctttgatatgtatta-----tttcgagcgtttgctaacactccatattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGATGATGGGATTAGGCCAGGGACCACAGCATCTGGATTGGCGAAACTGAAAC
                                       | || ||||        ||| |  |    ||  |   |     ||   || || | |  |    || |     | |  |  |||  || | | ||  |  | ||||||| ||||| || || ||||||||||| ||| ||||||||||||||||||||||||| |||||||||||||||||||||||||||||||| || || ||||
gtaagaggctctgggatttagttcatgtgatgtaacctagtttattgttcatggttattgttgactcatgaatggttgttgtcactggatttttcttttgctaatcaggacctgtgcaaggttcactgatattctttcctgtgcagATTGTTGACCCCAAGACTGGAGAGGAAAAGAAAGTTGTGATATCAGTTGATGATGGAATTAGGCCAGGGACCACAGCATCTGGATTGGCAAAGCTTAAAC

upper sequence: GRMZM5G848768_T02 (Zea mays), 3'ss of exon 8
lower sequence: PP1S67_59V6.1 (Physcomitrella patens), 3'ss of exon 6
------gcttgttgtctgacc--aaattatcaatctggttacctaggaacagaagagttctttgatatgtattatttcgagcgtttgctaacactccatattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGATGATGGGATTAGGCCAGGGACCACAGCATCTGGATTGGCGAAACTGAAAC
       |||||  ||| | |  |    | |  | || |||   |     || | || |||     ||| || |  |   |  ||    ||  || ||   |   ||||| ||||||||||||||||||||||||||| |||| || || || |  ||||| || ||| |||| |||||  |     |||  ||| ||||  ||||  
aactgtacttgtattctcatcctagggcaactttttgattatggaaagttaggaaaggtctc----atgcatgacataatgaattc---aagccttcac-cttgacagATTGTTGATCCTAAAACTGGAGAGGAGAAGCAAGTAGTCATCTCCGAGGATGACGGTATTCGGCCTGGGACATCCCTTGCTGACTTGTCGAAGTTGAAGA
















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|32868231|gb|CF007913.1|CF007913
EST:     GAGATCGTCCCGGTGCCAACAAAG                         ATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
genomic: GAGATCGTCCCCGTGCCAACAAAGgtaagatgga ... tattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
EST: gi|6994094|gb|AW453308.1|AW453308
EST:     CACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCGGTGCCAACCAAAG                         ATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGA
genomic: CACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCCGTGCCAA-CAAAGgtaagatgga ... tattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGA
EST: gi|91874450|gb|EB404407.1|EB404407
EST:     CCACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCCGTGCCAACAAAG                         ATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
genomic: CCACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCCGTGCCAACAAAGgtaagatgga ... tattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
EST: gi|213184067|gb|FM191388.1|FM191388
EST:     CCACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCTGGTGCCAACAAAG                         ATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
genomic: CCACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCCGTGCCAACAAAGgtaagatgga ... tattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
EST: gi|74238395|gb|DT646309.1|DT646309
EST:     CCCCGTGCCAACAAAG                         ATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
genomic: CCCCGTGCCAACAAAGgtaagatgga ... tattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
EST: gi|33942354|gb|CF348954.1|CF348954
EST:     GGAAAATTCAAGGATGAGATCGTCCCGGTGCCAACAAAG                         ATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
genomic: GGAAAATTCAAGGATGAGATCGTCCCCGTGCCAACAAAGgtaagatgga ... tattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
EST: gi|60672291|gb|DN475055.1|DN475055
EST:     CCACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCGGTGCCAACAAAG                         ATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
genomic: CCACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCCGTGCCAACAAAGgtaagatgga ... tattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
EST: gi|148952059|gb|EC897848.2|EC897848
EST:     CCACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCCGTGCCAACAAAG                         ATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
genomic: CCACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCCGTGCCAACAAAGgtaagatgga ... tattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
EST: gi|32859848|gb|CD999529.1|CD999529
EST:     CCACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCGGTGCCAACAAAG                         ATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
genomic: CCACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCCGTGCCAACAAAGgtaagatgga ... tattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
EST: gi|6012216|gb|AW061758.1|AW061758
EST:     CCACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCGGTGCCAACAAAG                         ATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT
genomic: CCACGGCCTCTGGAAAATTCAAGGATGAGATCGTCCCCGTGCCAACAAAGgtaagatgga ... tattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agagttctttgatatgtattatttcgagcgtttgctaacactccatattctgcagATCGTTGATCCTAAAACTGGAGAGGAGAAGGAAGTTGTGATATCAGTTGATGATGGGATTAGGCCAGGGACCACAGCATCTGGATTGGCGAAACTGAAAC
                                tgctaac  putative branch site (score: 1)
       tttgatatgtattatt  TA-rich tract