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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaccagccatgtattctcttatgttatttttctagtttcaaatatgaatatgtttctatgtaacatcctcctcctaacatgaccgcgttcctgtaacagGAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTTTGTGTATTGCTTGTACCATGTAATGCATGCCAGTCCATATACACGGGTAC

Basic information

species Zea mays
transcript GRMZM2G362088_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G362088_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g05740.1 (Oryza sativa), 3'ss of exon 7
ttaccagccatgtattctcttatgttatttttctagtttcaaatatgaatatgtttctatgt-aacatcctcctcctaacatgaccgcgttcctgtaacagGAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTTTGTGTATTGCTTGTACCATGTAATGCATGCCAGTCCATA-TACACGGGTAC---
||   | ||   |||  |   || || ||  |  | |    |    | | | |   || ||| ||| || ||||| |||| ||| |  ||||||   |||||||||||| ||||||||||| ||||||||||| || ||| |     |||  |||| ||| ||| |   || ||  ||| | ||    || |   |  |||    
tttttatcctcttatgtttaaatctt-ttgctacactacatagctgggaaaagaaactttgtgaacgtcgtcctcataacttgatcatgttccttgtacagGAAATTGCGAAGAGGTTGCCCAGGCCAACGGCGTCTTGATAATTAGCTTCGGTGT-TTG-TTGAA--GTGGAACACATACAAGCTGGTAATGTGCATGTAACAT
















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|74243753|gb|DT651667.1|DT651667
EST:     TCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAG                         GAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTTT
genomic: TCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAGgtatgctttg ... cctgtaacagGAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTTT
EST: gi|60348599|gb|DN215572.1|DN215572
EST:     TCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAG                         GAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTTT
genomic: TCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAGgtatgctttg ... cctgtaacagGAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTTT
EST: gi|148937430|gb|EC881611.2|EC881611
EST:     TCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAG                         GAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTTT
genomic: TCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAGgtatgctttg ... cctgtaacagGAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTTT
EST: gi|211222474|gb|FL437630.1|FL437630
EST:     TCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAG                         GAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTGT
genomic: TCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAGgtatgctttg ... cctgtaacagGAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTTT
EST: gi|32856098|gb|CD995779.1|CD995779
EST:     TCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAG                         GAAATTGCAAAGAGGTTGCCTAGGCCATCGGCATCGTGACAGAACACTTGT
genomic: TCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAGgtatgctttg ... cctgtaacagGAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTTT
EST: gi|32940145|gb|CF044964.1|CF044964
EST:     TCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAG                         GAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTGT
genomic: TCATTGAGACGTCGGCCAAGACAGCTGATAATATAAACCAACTGTTTGAGgtatgctttg ... cctgtaacagGAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaatatgtttctatgtaacatcctcctcctaacatgaccgcgttcctgtaacagGAAATTGCAAAGAGGTTGCCTAGGCCAACGGCATCGTGACAGAACACTTTTGTGTATTGCTTGTACCATGTAATGCATGCCAGTCCATATACACGGGTAC
                           tcctaac  putative branch site (score: 1)
                                         cgttcct  putative PPT
        tttctat  TA-rich tract