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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttccactatcccactttcaaattctaaatattgcatgcttcttatattggtctctgtgcaacttttatatatacttctcaatgtgtctgtgtttaatttaacacaagttctctattgcagTGGTTTGAGGTTCTTGATGGGCTCCTCGGGAAACACTGGAGAAACGTGGGCTTGGCCTTCAACTGCACATTTCTTCTATTTGGATCTGTTATCCAACTCA

Basic information

species Glycine max
transcript GLYMA04G00640.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G00640.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os10g05690.1 (Oryza sativa), 3'ss of exon 1
gttccactatcccactttcaaatt--ctaaatattgcatgcttcttatattggtctctgtgcaacttttatatatacttctcaatgtgtctgtgtttaatttaacacaagttctctattgcagTGGTTTGAGGTTCTTGATGGGCTCCTCGGGAAACACTGGAGAAACGTGGGCTTGGCCTTCAACTGCACATTTCTTCTATTTGGATCTGTTATCCAACTCA
               |||     |  ||  |||| || | ||  |||||   |      |     |     |||||    ||| |  ||       ||   | | ||| ||| | | |  |||||||||||||| || |||||||| || ||||  |||||||| || |||||  |||||||||||||||| ||| | || || || || || |||||||| |
---------------tttatggctggctttatatagcctacta-ttatacctgctctaatatcgttaacg-atatataaatcagtacgtga-----tatggtgatacatgtttt-tgtaccagTGGTTTGAGGTGCTGGATGGGCTACTGGGGAGGCACTGGAGGAATGTGGGACTGGCCTTCAACTGCACGTTTTTGCTGTTCGGGTCGGTGATCCAACTGA

upper sequence: GLYMA04G00640.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g14080.1 (Oryza sativa), 3'ss of exon 2
gttccactatcccactttcaaattctaaatattgcatgcttcttatattggtctctgtgcaacttttatatatac-ttctcaatgt---gtctgtgtttaatttaacacaagttctctattgcagTGGTTTGAGGTTCTTGATGGGCTCCTCGGGAAACACTGGAGAAACGTGGGCTTGGCCTTCAACTGCACATTTCTTCTATTTGGATCTGTTATCCAACTCA
                  ||||  ||| ||  | ||      ||     |   |  |  |  || || | | ||  ||||  | ||   | |  ||   | || |||    | | |  || ||||||||| ||||| || || || || || ||||  || ||||||||||| ||| |||||||||||||||| || || || || || || || ||||| ||||
-------------gtaaacaaaaactacattgttcaaatccatttcgccgccgtacggtcttctcttctctgtatgttctgtaagttcagaccctgaagacttcaaccattgatgtgcat-gcagTGGTTCGAGGTGCTGGACGGCCTGCTGGGGAGGCATTGGAGAAACGTCGGCCTGGCCTTCAACTGCACCTTCCTACTCTTCGGCTCCGTCATCCAGCTCA

upper sequence: GLYMA04G00640.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G045057_T02 (Zea mays), 3'ss of exon 2
-----------------------gttccactatcccactttcaaattctaaatattgcatgcttcttatattggtctctgtgcaacttttatatatacttctcaatgtgtctgtgtttaatttaacacaagttctcta-----ttgcagTGGTTTGAGGTTCTTGATGGGCTCCTCGGGAAACACTGGAGAAACGTGGGCTTGGCCTTCAACTGCACATTTCTTCTATTTGGATCTGTTATCCAACTCA
                        |   |||||    ||  | |    |  || |||  || | |  || ||||| |   |  |||      | |   || |  |  | |||      |   |        || |||        |||||||||||||||||| |||||||| || ||||| |||||||| ||||| ||| |   |||||||||||| || || || || || || || ||||| ||||
gtgcgtgtgtcatgtgtatatatatatgactattt-gctagctatacttgtattttgtttgttccaaattttggtttgaat-taacaccatcagaagtttgtggaaat-tctacaccaataattgtcttttttttctggggagccgcagTGGTTTGAGGTTCTGGATGGGCTACTGGGGAAGCACTGGAGGAACGTCGGCCTCTTCTTCAACTGCACTTTCCTCCTCTTCGGCTCCGTCATCCAGCTCA

upper sequence: GLYMA04G00640.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G21050.1 (Arabidopsis thaliana), 3'ss of exon 2
gttccactatcccactttcaaattctaaatattgcatgcttcttatattggtctctgtgcaacttttatatatacttctcaatgtgtctgtgtttaatttaacacaagttctctattgcagTGGTTTGAGGTTCTTGATGGGCTCCTCGGGAAACACTGGAGAAACGTGGGCTTGGCCTTCAACTGCACATTTCTTCTATTTGGATCTGTTATCCAACTCA
                      ||||     || |     | || ||||  ||   ||  |  | | | ||    || |   |         ||| |  |       |||      || ||||||||||||||||||||||  | || ||||| || ||||| || || || || ||||| |||||||| || ||||| ||||||||||| || |||||||
--------------------gtttct-----ttactgatcttttctattattcaaagtatatatctgacatg---ttttttgtacaaaaacatttgacatgttgttggttaatg--tgaagTGGTTTGAGGTTCTTGATGGATTGCTTGGGAAGCATTGGAGGAATGTTGGTTTAGCCTTTAACTGCACCTTCCTTCTCTTTGGATCTGTCATTCAACTCA

upper sequence: GLYMA04G00640.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 2
gttccactatcccactttcaaattctaaatattgcatgcttcttatattg-gtctctgtgcaacttttat-atatacttctca-atgtgtctgtgtttaatttaacacaagttctctattgcagTGGTTTGAGGTTCTTGATGGGCTCCTCGGGAAACACTGGAGAAACGTGGGCTTGGCCTTCAACTGCACATTTCTTCTATTTGGATCTGTTATCCAACTCA
                |    ||    | || | |    ||||| | |     | |||| | |  ||| | ||  | ||| || ||| |  | |    | ||| |      ||||       |||||||||| |||||||||||||| || || ||||||||||| |||||||| ||||| ||||||||||| |||||||| |||||||| || || |||||||
---------------gtcttgatcagtactactccccatttcttctctcctaccactgttccatctttttgatccatttcccacatggggttct-cacactttcatgtgttttcttgtcaaaagTGGTTTGAAGTTCTTGATGGGCTGCTTGGCAAACACTGGAGGAACGTGGGGTTGGCTTTCAACTGCACTTTTCTTCTGTTTGGATCCGTGATTCAACTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatatatacttctcaatgtgtctgtgtttaatttaacacaagttctctattgcagTGGTTTGAGGTTCTTGATGGGCTCCTCGGGAAACACTGGAGAAACGTGGGCTTGGCCTTCAACTGCACATTTCTTCTATTTGGATCTGTTATCCAACTCA
                              atttaac  putative branch site (score: 3)
                                          ttctctatt  putative PPT
                          tttaatttaacacaa  TA-rich tract