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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattaataagctagctagcatttaaatatacatatacgcctgacgcctgtatatatatcgtttgatttagacctagaccacctcactagctagaaggaaaggaaagaaaaaagaaagaaaatctggcatgcttagtgctgattaattaattcttggcttcagGTCTTACTCCTTGGGCGACTGCACCACAGGAACCTGGTGAATTTGGTCGGCTACTGCGCCGACAAAGGGCAGCATATGCTACTGTACGCGTACATGCCGA

Basic information

species Zea mays
transcript GRMZM2G093858_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G093858_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g04420.1 (Oryza sativa), 3'ss of exon 2
gtaattaataagctagctagcatttaaatatacatatacgcctgacgcctgtatatatatcgtttgatttagacctagaccacctcactagctagaaggaaaggaaagaaaaaagaaagaaaatctggcatgcttagtgctgatt-aattaattcttggcttcagGTCTTACTCCTTGGGCGACTGCACCACAGGAACCTGGTGAATTTGGTCGGCTACTGCGCCGACAAAGGGCAGCATATGCTACTGTACGCGTACATGCCGA
                                                                                                   |    |     |   |  ||||| |||| | ||||| ||  | |||  ||  | | ||   ||||||| ||||| ||||| ||| |||||||||||||||||||||||||||| ||||| ||||| || |||||||||||||||||| | || || | |||||| |
------------------------------------------------------------------------------------------------gtaagccaatctttatgcgccagaaactctgac-tgcttggtatttatttgatagactgttaatttcagGTTTTACTTCTTGGACGATTGCACCACAGGAACCTGGTGAATTTGGTTGGCTATTGCGCTGAAAAAGGGCAGCATATGCTATTATATGCATTCATGCCTA
















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|148928132|gb|EC872655.2|EC872655
EST:     AAGTGCTGTCGAACAATTCCAGGCAAGGTGAAAAGGAGTTCCAAAACGAG                         GTCTTACTCCTTGGGCGACTGCACCACAGGAACCTGGTGAATTTGGTCGGC
genomic: AAGTGCTGTCGAACAATTCCAGGCAAGGTGAAAAGGAGTTCCAAAACGAGgtaattaata ... ttggcttcagGTCTTACTCCTTGGGCGACTGCACCACAGGAACCTGGTGAATTTGGTCGGC
EST: gi|149073410|gb|EE161714.2|EE161714
EST:     AAGTGCTGTCGAACAATTCCAGGCAAGGTGAAAAGGAGTTCCAAAACGAG                         GTCTTACTCCTTGGGCGACTGCACCACAGGAACCTGGTGAATTTGGTCGGC
genomic: AAGTGCTGTCGAACAATTCCAGGCAAGGTGAAAAGGAGTTCCAAAACGAGgtaattaata ... ttggcttcagGTCTTACTCCTTGGGCGACTGCACCACAGGAACCTGGTGAATTTGGTCGGC
EST: gi|148930222|gb|EC872656.2|EC872656
EST:     AAGTGCTGTCGAACAATCCCAGGCAAGGTGAAAAGGAGTTCCAAAACGAG                         GTCTTACTCCTTGGGCGACTGCACCACAGGAACCTGGTGAATTTGGTCGGC
genomic: AAGTGCTGTCGAACAATTCCAGGCAAGGTGAAAAGGAGTTCCAAAACGAGgtaattaata ... ttggcttcagGTCTTACTCCTTGGGCGACTGCACCACAGGAACCTGGTGAATTTGGTCGGC
EST: gi|148997914|gb|EE035902.2|EE035902
EST:     AGTGCTGTCGAACAA-TCCAGGGCAAGGTGAAAAGGAGTTCCAAAACGAG                         GTCTTACTCCTTGGGCGACTGCACCACAGGAACCTGGTGAATTTGGTCGGC
genomic: AGTGCTGTCGAACAATTCCA-GGCAAGGTGAAAAGGAGTTCCAAAACGAGgtaattaata ... ttggcttcagGTCTTACTCCTTGGGCGACTGCACCACAGGAACCTGGTGAATTTGGTCGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaagaaagaaaatctggcatgcttagtgctgattaattaattcttggcttcagGTCTTACTCCTTGGGCGACTGCACCACAGGAACCTGGTGAATTTGGTCGGCTACTGCGCCGACAAAGGGCAGCATATGCTACTGTACGCGTACATGCCGA
                                    aattaat  putative branch site (score: 3)
                                          ttctt  CT-rich tract
                               tgattaattaattctt  TA-rich tract