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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgctggcgatgctacccagattaacaacatcacatgtacatgtcttctgactcaattgtgtggcgctcatcttgctgagcacggcatttctgcgcaacagATGTATGTCACGCCACCGGACACCGACATCTACTCCATTCCGAGGGTTCTTGCCCCGATGCCGCAGAAG

Basic information

species Zea mays
transcript GRMZM5G829928_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G829928_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g01890.1 (Oryza sativa), 3'ss of exon 1
-------------------------------------------------------------------------------------tgctggcgatgctacccagattaacaacatcaca----tgtacatgtcttctga-ctcaattgtgtggcgctcatcttgctgagcacggcatttct-------gcgcaacagATGTATGTCACGCCACCGGACACCGACATCTACTCCATTCCGAGGGTTCTTGCCCCGATGCCGCAGAAG
                                                                                     || |   |   |  | ||    |    |||  ||    | | ||  |   | || ||||||  | | | | | ||    || |     |  || ||       | ||||||||||||||||||||| || ||||| |||||||||||||| || ||||||||||| ||||||||||| |||
gtatacatcctcatttatctgtctaacactagtacattctttgctaattgcctgtgttatcaagcatgtatttgacaatgctatctgttaatgcaacatctcatgacacattcattgcagtgctatccaaattgacagaactcaatcttttag-gttgattgaactaaatcatgtgttccttcataatgtgcaacagATGTATGTCACGCCGCCTGACACTGACATCTACTCCATCCCAAGGGTTCTTGCTCCGATGCCGCAAAAG

upper sequence: GRMZM5G829928_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g01950.1 (Oryza sativa), 3'ss of exon 1
---------------------------------------------------------------------tgctggcgatgctacccagattaacaacatcacatg-tacatgtctt---------------ctgactcaattg----tgtggcgctcatcttgctgagcacggcatttct-------gcgcaacagATGTATGTCACGCCACCGGACACCGACATCTACTCCATTCCGAGGGTTCTTGCCCCGATGCCGCAGAAG
                                                                        || | ||||||||        ||||||| ||||  ||||   ||                |||| ||| |     | |   | |  |    || |     |  || ||       | ||||||||||||||||||||| || ||||| |||||||| ||||| || ||||||||||| ||||||||||| |||
gtatacatcccatttatctgtctaacactagtacattcttttgctagttgcctgtgttatcaagcatgtatttgacaatgctacctgttcatgcaacatctcatgacacattcattgcagtgctatccaaattgacacaactcaatcttttaggttgtttgaactaaatcatgtgttccttcataatgtgcaacagATGTATGTCACGCCGCCTGACACTGACATCTATTCCATCCCAAGGGTTCTTGCTCCGATGCCGCAAAAG

upper sequence: GRMZM5G829928_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT1G21600.1 (Arabidopsis thaliana), 3'ss of exon 1
-tgctggcgatgctacccagattaacaacatcacatgtacatgtcttctgactcaattgtgtggcgctcatcttgctgagcacggcatttctgcg-caacagATGTATGTCACGCCACCGGACACCGACATCTACTCCATTCCGAGGGTTCTTGCCCCGATGCCGCAGAAG
 ||   |   | | |   |   |||   | |||  | | |   |  |||        ||        |||  |||   |        | |  | | |  ||||||||||| || || ||||| || || || ||||| |||||||| |||||||| |||||||| || |||
gtgtgtgaattcccagtgactctaattgc-tcatttcttcgatttctctagagtctgtgctcattcttcaa-ttgtaaattgttttgtgtgggtggctgcagATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTTGCACCGATGCCTCAAAAG

upper sequence: GRMZM5G829928_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv18s0001g01770.t01 (Vitis vinifera), 3'ss of exon 1
tgctggcgatgctacccagattaacaacatcacatgtacat-gtcttctgactcaattgtgtggcgctcatcttgctgagcacggcatttctgcgcaacagATGTATGTCACGCCACCGGACACCGACATCTACTCCATTCCGAGGGTTCTTGCCCCGATGCCGCAGAAG
 | | |   | ||        |       | | |||   || ||  | |   | ||  |        |    || ||  |      |||| |  |    |||||||||| || || |||||||| ||  | ||| ||||||| ||||||||||| || ||||||||||||
-gttagtttttctgatttt-ctcgtttttttagatgagaattgtgctattgatgaaagggaatattttggggtttctttgttttttattttttggttgtagATGTATGTTACTCCTCCGGACACTGATGTGTACGCCATTCCAAGGGTTCTTGCGCCAATGCCGCAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgactcaattgtgtggcgctcatcttgctgagcacggcatttctgcgcaacagATGTATGTCACGCCACCGGACACCGACATCTACTCCATTCCGAGGGTTCTTGCCCCGATGCCGCAGAAG
 ttctgac  putative branch site (score: 2)
                                       catttct  putative PPT