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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccaaggaattcctatttcatcaagagaaaataaactagtttctcttagtaggcaattgtttgtcagtacaaaaactaacagcattttctgcctgacgcagGAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTACTCCAGTTTCTCGTCTGGCACCGAGCGAGCTGTCAAGACATGGCAGGTTA

Basic information

species Zea mays
transcript GRMZM2G031721_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G031721_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g43420.1 (Oryza sativa), 3'ss of exon 1
ccaaggaattcctatttcat-caagagaaaataaactagtttct----cttagtaggca-attgtttgtcagtacaaaaactaaca--gcattttctgc-ctgacgcagGAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTACTCCAGTTTCTCGTCTGGCACCGAGCGAGCTGTCAAGACATGGCAGGTTA
         ||  ||  ||  | |  | ||||   | |   |||    | ||| ||  | |    |  || ||| || |  |||    |     | ||| || ||||||||||| ||| | ||||| ||||  || || ||||| ||||||||||||| |||||| ||||| ||||||||||| |||||||| ||||||||||||    
---------tctgatcacacgcgacggcaaattggcaatgctctgcaccgtagcagttacaagactaatcggtagaatacataattttgagccctttgcactaacgcagGAAGCATTGGAAAAGCTGGGTTACTATTCGGGCGAAGAAGACATGGAGTTCTCCAGCTTCTCATCTGGCACCGAACGAGCTGTGAAGACATGGCAG----

upper sequence: GRMZM2G031721_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA10G33590.1 (Glycine max), 3'ss of exon 1
ccaaggaattcctatttcatcaagagaaaataaactagtttctcttagtaggcaattgtttgt--cagtacaaaaactaacagcattttctgcc--tgacg---cagGAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTACTCCAGTTTCTCGTCTGGCACCGAGCGAGCTGTCAAGACATGGCAGGTTA
        |   ||| |  |     ||  ||    | ||| |  |  | | |    |  |||   || |    || || ||   || |  ||    |||     |||||||| |||  |||  | || |||||||| |||||||||||||||||||| ||||| |||||   ||| || ||||| ||||| ||||| |||||     
-------ttaattatctactagtacgaggattggtttgttgcaatctgcacgtggataattggtgcaatgtggaatcttacttgatgtgttgaaaatgaaataacagGAAGCATTGTTGAAATTGGGGTTTTACTCTGGCGAGGAAGACATGGAGTATTCCAGCTTCTCAAGTGGAACTGAGCGTGCTGTGAAGACTTGGCAA----

upper sequence: GRMZM2G031721_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA20G34000.1 (Glycine max), 3'ss of exon 2
ccaaggaattcctatttcatcaaga-gaaaataaactagtttctcttagtaggcaattgtttgtcagtacaaaaa-ctaacagcattttctgcctgacg--cagGAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTACTCCAGTTTCTCGTCTGGCACCGAGCGAGCTGTCAAGACATGGCAGGTTA
    |   ||  |  |  |  |  | ||| ||    | ||| |  |  | | |    |  |||     |   ||| || ||    |    ||    |    |||||||| |||  |||  | || |||||||| |||||||||||||||||||| ||||| |||||   ||| |||||||| ||||| ||||| |||||     
----gaccttaattatctactagtacgaagatttgtttgttgcaatctgcacgtggataattggtgccatgtaaatcttacttggtgcattgttgaaatatcagGAAGCATTGTTGAAATTGGGGTTTTACTCTGGCGAGGAAGACATGGAGTATTCCAGCTTCTCAAGTGGAACCGAGCGTGCTGTGAAGACTTGGCAA----


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtaggcaattgtttgtcagtacaaaaactaacagcattttctgcctgacgcagGAAGCTTTGCAGAAGCTCGGTTTTTACTCAGGCGAGGAAGACATGGAGTACTCCAGTTTCTCGTCTGGCACCGAGCGAGCTGTCAAGACATGGCAGGTTA
                                      ttttctgcct  CT-rich tract
                        aaaaactaa  TA-rich tract