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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggattggcttaggacaagaccaaaaacggcctatatttcgaaacggggtcatgaacacacaactctcgactgatcatgttatttgctttgttaattccagGTATGACTACCTGTTCGATCCAGACGAGGCCGATGAACGCAAAGTGCCATGCCTTTGTCAGACTGCTAACTGCCGGAAATTCATGAATTAGTTCGCTTAG

Basic information

species Zea mays
transcript GRMZM2G179814_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179814_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g46700.1 (Oryza sativa), 3'ss of exon 22
ggat-tggcttaggacaagaccaaaaacg--gcctatatttcgaaacggggtcatgaacacacaactctcgactgatcatgttatttgctttgttaattccagGTATGACTACCTGTTCGATCCAGACGAGGCCGATGAACGCAAAGTGCCATGCCTTTGTCAGACTGCTAACTGCCGGAAATTCATGAATTAGTTCGCTTAG
| || | ||  |  ||||  |  |   |     ||     | |   |         |  |   |  |   |||| | |||||  |||||||  | ||||  |||||||||||| | || || || |||||||| ||||| |||||||| || ||||| || || || ||||| || || |||||||||||||||||  ||   
gtatgttgcaaaatacaaagcttatttctttatcttagcatagctgcaactcagaaaggaagtacataatgactaaccatgt-gtttgcttcctaaattt-agGTATGACTACTTATTTGACCCTGACGAGGCTGATGATCGCAAAGTTCCTTGCCTCTGCCAAACGGCTAATTGTCGTAAATTCATGAATTAGTTTACTGTA

upper sequence: GRMZM2G179814_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G41500.1 (Glycine max), 3'ss of exon 23
ggattggcttaggacaagaccaaaaacggcctatatttcgaaacggggtcatgaacacacaactctcgactgatcatgttatttgctttgttaattccagGTATGACTACCTGTTCGATCCAGACGAGGCCGATGAACGCAAAGTGCCATGCCTTTGTCAGACTGCTAACTGCCGGAAATTCATGAATTAGTTCGCTTAG
 |  || ||  |     |  ||      || |   |    |         |||  ||      |||  |  | | ||| |  ||| |||| |     ||||||||||||| |||| ||||| || ||| | || |||  |||||| |||||||| ||| |  || | ||||||||||||||||||||||||   |  |  
-gtatgtctctgtgtgtgtgcac-----gcgtgcgtgcgcatgtatcagtatgtgcatg---ttctttatagttgatgctggttgttttggtttgggcagGTATGACTACTTGTTTGATCCTGATGAGCCAGAGGAAAACAAAGTCCCATGCCTATGTAAAGCTCCAAACTGCCGGAAATTCATGAATTAGGAAGGATTA

upper sequence: GRMZM2G179814_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT4G27910.1 (Arabidopsis thaliana), 3'ss of exon 22
ggattggcttaggacaagaccaaaaacggcctatatttcgaaacggggtcatgaacacacaactctcgactgatcatgttatttgctttgttaattccagGTATGACTACCTGTTCGATCCAGACGAGGCCGATGAACGCAAAGTGCCATGCCTTTGTCAGACTGCTAACTGCCGGAAATTCATGAATTAGTTCGCTTAG
      |   |  ||        | |    | ||  ||| |      |             |   |  |   |  ||||| | || | | ||     ||||||||| ||| | || |||||||||||||| || |||| ||| ||||||||| | ||| |  |  |||||||| |||||||||||||||||       ||
------gtacacaacgcatttctatatataccattcttcaatctaaagctgattgattgtcatagtttaagaa--atgttgtgtggtgttttgg---cagGTATGATTACTTATTTGATCCAGACGAGGCAGAGGAACTCAAGGTGCCATGCTTATGTAAAGCCCCTAACTGCAGGAAATTCATGAATTAGAATAGAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggtcatgaacacacaactctcgactgatcatgttatttgctttgttaattccagGTATGACTACCTGTTCGATCCAGACGAGGCCGATGAACGCAAAGTGCCATGCCTTTGTCAGACTGCTAACTGCCGGAAATTCATGAATTAGTTCGCTTAG
                                           tgttaat  putative branch site (score: 3)
                                        ctttgtt  CT-rich tract
                                         tttgttaatt  TA-rich tract