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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagctgtgactttcactccctttttttggacaaaaactttcagcccctaaaaaacttcttgtgaaacatttttgaacttatagtcgatttgacagGACAAGTCTTCTACCTCCAACCTGAAGATTGAAGCACTTGTATTAACAAGGCTTGTTATGGCTTCACATTCGCCATCTGTGTTTCATCCATACATCAAG

Basic information

species Zea mays
transcript GRMZM2G053644_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G053644_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 13
gttagctgtgactttcactccctttttttggacaaaaactttcagcccctaaaaaacttcttgtgaaacatttttgaacttatagtcgatttgacagGACAAGTCTTCTACCTCCAACCTGAAGATTGAAGCACTTGTATTAACAAGGCTTGTTATGGCTTCACATTCGCCATCTGTGTTTCATCCATACATCAAG
         |    | | |||| ||||   |   ||||  ||  |  |    |  ||||||  |       ||   ||||| |  ||  ||| | |||| ||||| |||||||||||||||||||||||||| |||||||| ||||| |||||||||||||||||||| ||| |||||||||||||||||||  ||
---------gttggtgattcccatttt---gcttaaaatattatgtgc----aggacttctacttg-----ttgctaacttgttttctttttcatagGATAAGTCATCTACCTCCAACCTGAAGATTGAAGCCCTTGTATTTACAAGACTTGTTATGGCTTCACATTCCCCAGCTGTGTTTCATCCATACATACAG

upper sequence: GRMZM2G053644_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os02g07340.1 (Oryza sativa), 3'ss of exon 9
gttagctgtgactttcactccctttttttggacaaaaactttcagccc-ctaaaaaacttcttgtgaaacatttttg---------aacttatagtcgatttgacagGACAAGTCTTCTACCTCCAACCTGAAGATTGAAGCACTTGTATTAACAAGGCTTGTTATGGCTTCACATTCGCCATCTGTGTTTCATCCATACATCAAG
     ||| || |   |   | ||   |  |      | |  ||     ||||||||  |  |||| |  | || |          ||||| |  ||  ||| | |||| ||||| |||||||||||||||||||||||||| |||||||| ||||| |||||||||||||||||||| ||| |||||||||||||||||||  ||
-----ctgggattgagaacgctttgaat--gttggtgattcccattttgctaaaaaagattatgtgcaggacttctacttgttgctaacttgttttctttttcatagGATAAGTCATCTACCTCCAACCTGAAGATTGAAGCCCTTGTATTTACAAGACTTGTTATGGCTTCACATTCCCCAGCTGTGTTTCATCCATACATACAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagcccctaaaaaacttcttgtgaaacatttttgaacttatagtcgatttgacagGACAAGTCTTCTACCTCCAACCTGAAGATTGAAGCACTTGTATTAACAAGGCTTGTTATGGCTTCACATTCGCCATCTGTGTTTCATCCATACATCAAG
    ccctaaa  putative branch site (score: 3)
                           atttttgaacttata  TA-rich tract