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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaggtggttgctccgccggagagaaagtacagtgtttggattggtggttcaattctggcctccctcagtacctttcagtaggttgttatcctgtcaaaatctaaatgagacgtttttgcttgctctgcaatctattgtatttgaaatttgacttagtcttgttattgtgttgtagATGTGGATCTCCAAGGAAGAGTATGATGAATCTGGTCTGGGCATCGTCCACATGAAGTGCTTCTGA

Basic information

species Zea mays
transcript AC194350.3_FGT001
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AC194350.3_FGT001 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g64630.1 (Oryza sativa), 3'ss of exon 4
gtgaaggtggttgctccgccggagagaaagtacagtgtttggattggtggttcaattctggcctccctcagtacctttcagtaggttgttatcctgtcaaaatctaaatgagacgtttttgcttgctctgcaatctattgtatttgaaatttgacttagtcttgttattgtgttgtagATGTGGATCTCCAAGGAAGAGTATGATGAATCTGGTCTGGGCATCGTCCACATGAAGTGCTTCTGA----------------------------------
                                                                     ||||   | || ||   | ||      |  ||||        |   ||| |  |||||   || | |  | |     |||  | |     ||   ||| | |||   ||||||||||||||||||  || || |||||||||||||  ||||||||||||||||||||||||| |                                  
-----------------------------------------------------------------gtctagtaatatgcacta--ctatttcttctttgaaatt-------ggtatttcta-ttgctgatcattttgctctgc---aaaactaatgacatccacttaatttgtcacagATGTGGATCTCCAAGGCCGAATACGATGAATCTGGTCCAGGCATCGTCCACATGAAGTGCTTCTAAGTTTGTGGGCAGATTTGTACCATTATCAGCTGAT

upper sequence: AC194350.3_FGT001 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA15G05570.1 (Glycine max), 3'ss of exon 4
gtgaaggtggttgctccgccggagagaaagtacagtgtttggattggtggttcaattctggcctccctcagtacctttcagtaggttgttatcctgtcaaaatctaaatgagacgtttttgcttgctctgcaatctattgtatttgaaatttgacttagtcttgttattgtgttgtagATGTGGATCTCCAAGGAAGAGTATGATGAATCTGGTCTGGGCATCGTCCACATGAAGTGCTTCTGA----------------------------------
                                    ||||| | || || ||   |||  ||    ||||  | |   |  |   ||||| |          |  || | | | || || | ||    || ||   |  |||||     | | |||| ||  | ||||     |||||||||||||||||||||  || |||||||||||||| |  | |||||| ||   ||||||||||| |                                  
------------------------------------gtttgtactgatgttttt-ttcctgctattctcaacatccccccctcatttgttct----------tacaagtaaaatgtattagttta---tggaaggcag-gtattgagtgtgt-actttgttctcttata----tgtagATGTGGATCTCCAAGGGTGAATATGATGAATCTGGGCCAGCCATCGTTCATCGGAAGTGCTTCTAAAGTTGGGTCAAGTCGAGCTGGATGGTGATCAAGT

upper sequence: AC194350.3_FGT001 (Zea mays), 3'ss of exon 7
lower sequence: AT1G49240.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgaaggtggttgctccgccggagagaaagtacagtgtttggattggtggttcaattctggcctccctcagtacctttcagtaggttgttatcctgtcaaaatctaaatgagacgtttttgcttgctctgcaatctattgtatttgaaatttgacttagtcttgttattgtgttgt-agATGTGGATCTCCAAGGAAGAGTATGATGAATCTGGTCTGGGCATCGTCCACATGAAGTGCTTCTGA----------------------------------
                                                   | || |  | |   | |   ||  |||  |    ||||  |  ||   |||| || |  |    |  |    || | | || | |  ||| | ||                |||   |||||  | ||||||||||||| |||| ||||||||||||| | ||||  ||||| |||||||  || ||||||| |                                  
--------------------------------------------------gtaaaattggactgtcatttctaagtttttgcttcttgtggt--tgattaaatgtagacaa---ctcctctaatggtttacatttt-ctgtgtgtg----------------tgtgtgtgtgtaatcagATGTGGATCTCTAAGGCAGAGTATGATGAAGCAGGTCCAGGCATTGTCCACAGAAAATGCTTCTAAACTAAAGAGACATCGTTTCCATGACGGGATCACA

upper sequence: AC194350.3_FGT001 (Zea mays), 3'ss of exon 7
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 3'ss of exon 5
gtgaaggtggttgctccgccggagagaaagtacagtgtttggattggtggttcaattctggcctccctcagtacctttcagtaggttgttatcctgtcaaaatctaaatgagacgtttttgcttgctctgcaatctattgtatttgaaatttgacttagtcttgttattgtgttgtagATGTGGATCTCCAAGGAAGAGTATGATGAATCTGGTCTGGGCATCGTCCACATGAAGTGCTTCTGA----------------------------------
                                                                                       || ||    |||   | |   |  |   |||     || | || | ||| || |      |   | || |   ||| || |||   |  ||||||||||||| ||||  || ||||||||||||||||    ||| ||||||| ||||||||||| |                                  
---------------------------------------------------------------------------------------gtgattt--tcattttttgtttttggtttttacaaatggtttg-attcttttattgcatgatactaacatg--ctttttgttgg--tacagATGTGGATCTCAAAGGGTGAATATGATGAATCTGGTCCATCCATTGTCCACAGGAAGTGCTTCTAAGTAATACAAGTGCTTTGATGGTGAGTTCCTTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctctgcaatctattgtatttgaaatttgacttagtcttgttattgtgttgtagATGTGGATCTCCAAGGAAGAGTATGATGAATCTGGTCTGGGCATCGTCCACATGAAGTGCTTCTGA
                         atttgac  putative branch site (score: 4)
        aatctattgtatttga  TA-rich tract