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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctatgagaaatataaggctaaattcttgccttcttggtagaaaccaaattttaaagcaatgctgcaagcccttaaattatataatattttcatcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCACAACGAGTTAACAGATCTTGGCATCATCCCCTCATTGAAAGGCACCACTA

Basic information

species Zea mays
transcript GRMZM2G017853_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017853_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g26920.2 (Oryza sativa), 3'ss of exon 2
ctatgagaaatataaggctaaattcttgccttcttggtagaaaccaaattttaaagcaat---gctgcaagcccttaaattatataatattttcatcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCACAACGAGTTAACAGATCTTGGCATCATCCCCTCATTGAAAGGCACCACTA
   |   | || |||   |    | |  | |        ||  ||  | | | ||    |     ||    |  | | | | || | | |    |  || ||||| |||||| | |||||||||| ||||||||||||||||| | |||| |||||||| ||  |  || |||||||||| ||||| ||||| ||  ||||| 
--ttttaatatttaatcttctgat-taacataaaaaaatgatgccgcactgttaattcgtttaattgagtacaataataatgtacactgtccgtactctgtagGAACATCCAGGATGCAAAGTTTTTGGCCAGACCGCAAGCACAGATCACCACAACGAATTGTCGAATATTGGCATCATTCCCTCCTTGAAGGGATCCACTT

upper sequence: GRMZM2G017853_T01 (Zea mays), 3'ss of exon 2
lower sequence: 13113.m00225 (Oryza sativa), 3'ss of exon 2
ctatgagaaatataaggctaaattcttgccttcttggtagaaaccaaattttaaagcaat---gctgcaagcccttaaattatataatattttcatcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCACAACGAGTTAACAGATCTTGGCATCATCCCCTCATTGAAAGGCACCACTA
   |   | || |||   |    | |  | |        ||  ||  | | | ||    |     ||    |  | | | | || | | |    |  || ||||| |||||| | |||||||||| ||||||||||||||||| | |||| |||||||| ||  |  || |||||||||| ||||| ||||| ||  ||||| 
--ttttaatatttaatcttctgat-taacataaaaaaatgatgccgcactgttaattcgtttaattgagtacaataataatgtacactgtccatactctgtagGAACATCCAGGATGCAAAGTTTTTGGCCAGACCGCAAGCACAGATCACCACAACGAATTGTCGAATATTGGCATCATTCCCTCCTTGAAGGGATCCACTT
















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|74233405|gb|DT641319.1|DT641319
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|91051136|gb|EB161554.1|EB161554
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|91871463|gb|EB401433.1|EB401433
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|71437097|gb|DR818147.1|DR818147
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|76927174|gb|DV171165.1|DV171165
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|78082079|gb|DV510491.1|DV510491
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|71310883|gb|DR791744.1|DR791744
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|148975423|gb|EE025724.2|EE025724
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|78085442|gb|DV513835.1|DV513835
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|50336042|gb|CO531168.1|CO531168
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|101382998|gb|EB813552.1|EB813552
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|78089274|gb|DV517648.1|DV517648
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|71764490|gb|DR962427.1|DR962427
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
EST: gi|89251154|gb|DY622940.1|DY622940
EST:     TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAG                         GAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC
genomic: TTGTGGGCCCTGGTGTTCTTGGGCGAATCATAGCTGAGAAGTGGAAAAAGgtattcctag ... catcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattttaaagcaatgctgcaagcccttaaattatataatattttcatcctatagGAGCATCCAAGTTGCAAAGTTTATGGCCAGACCGCAAGCAAAAATCATCACAACGAGTTAACAGATCTTGGCATCATCCCCTCATTGAAAGGCACCACTA
                                         ttttcatcct  CT-rich tract
                          ttaaattatataatat  TA-rich tract