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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctaacttcaatgttttgttctgtgttctttgttctttgtgtacactatatcaccaaccatgttccttcctgatctttgggcagAACTTCTCATCACCTCTGAATCAGCTCTAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA

Basic information

species Zea mays
transcript GRMZM2G159061_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G159061_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA10G16090.1 (Glycine max), 3'ss of exon 3
----------gttctaacttcaatgttttgttctgtgttctttgttctttgt-gtacactatatcaccaaccatgttccttcctgatctttgg-gcagAACTTCTCATCACCTCTGAATCAGCTCTAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
           || | | ||     ||    |   ||    || || ||||| || |   | ||    ||    |     |  ||| |||||  |||||| ||  |||||||| |||| ||| |  | | ||| ||||||||||||||||||  |||||||||||| ||||| ||||| ||||| ||||     || |
gttgttcttgtttgtcagttggtctttggagtagatgcatgttcttgtttgttgtgcttaaaatatttaatatagactggtggtgaactttgttgcagAATTTTGCATCACCTTTGAACCAGGTGCAAAGCAGAATATGGCTGATGCATTGGAGTCTGTTCATCTTTTTTAATCATGACAATGGGAGAACACAAATAA

upper sequence: GRMZM2G159061_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA02G33770.1 (Glycine max), 3'ss of exon 3
----------------------------------------gttctaacttcaatgttttgttctgtgttctttgt-tctttgtgtacactatatcac---caaccatgttccttcctgatctttgg-gcagAACTTCTCATCACCTCTGAATCAGCTCTAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
                                        |||||   ||    |||    | ||   |   ||  | ||  |||    |||         |   || |    |  ||| ||| |  |||||| ||  |||||||| |||| ||| |  | | ||| ||||||||||||||||||  |||||||||||| ||||| ||||| ||||| ||||     || |
gttgttcttgtttgtcagttgatctttggagtagatgcatgttcttgtttgtcagttgatctttggagtagatgcatgttcttgtttgttatgcttaatatattaatatagactggtgaacttcgttgcagAATTTTGCATCACCTTTGAACCAGGTGCAAAGCAGAATATGGCTGATGCATTGGAGTCTGTTCATCTTTTTTAATCATGACAATGGGAGAACACAAATAA

upper sequence: GRMZM2G159061_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT3G57290.1 (Arabidopsis thaliana), 3'ss of exon 3
gttctaacttcaa---tgttttgttctgtgttctttgttctttgtgtacactatatcaccaaccatgttccttcctgatc-tttgggcagAACTTCTCATCACCTCTGAATCAGCTCTAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
|||   | || ||   | || |  | || |  |||||   |   | || | | |   |  |   ||| |   | |   |  |||   ||||  || ||||| ||  | || ||| |  |||||||||| ||| |||||||||||| |||||  ||||| ||||||||||| ||||| || |    |||||
gttagtatttaaaacttcttctagtttgcgacctttgaaatcaatataga-tgtgagagtatatatgctaactaccatttgttttttcagAGTTTTTCATCGCCGTTAAACCAGGTGCAGAACAGGATTTGGTTGATGCATTGGGGTCTGTATATCTTTTTTAACCATGATAATGGAAGGACACAGATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttctttgtgtacactatatcaccaaccatgttccttcctgatctttgggcagAACTTCTCATCACCTCTGAATCAGCTCTAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCA
                                      tcctgat  putative branch site (score: 3)
                                 ttccttcctgatcttt  CT-rich tract
               actatat  TA-rich tract