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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgttttctgtacaatctgtttttccatatattcaaaatgtgcttaatgtatttttacttgactcatttattttgtgaatgatatcaattttccgtagGTATGCAATGCAGTTGCTGTTGCTGGCTATCTCAATGCTACCCTTGTATTCCCCAACTTTCATTATCATAGCATATGGAAAGATCCCAG

Basic information

species Glycine max
transcript GLYMA20G02130.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G02130.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G094771_T01 (Zea mays), 3'ss of exon 3
gtaagtgttttctgtac-aatctgtttttccatatattcaaaatgtgcttaatgtatttt-----------tacttgactcatttattttgtgaatgatatcaattttccgtagGTATGCAATGCAGTTGCTGTTGCTGGCTATCTCAATGCTACCCTTGTATTCCCCAACTTTCATTATCATAGCATATGGAAAGATCCCAG
|||  |   |||      |     ||  || | |||||   | | ||| | || ||| ||           | ||    |||||  | ||||   | | |    | ||  | || | ||||||||||||||||||||||||| ||| ||||| || |||||| |||| ||||| |||||||| ||||| ||||  ||||| ||
gtatttagcttcgacctgagggccttcgtcaacatattaccactttgcatgatttatgttgtaatcctgtttgctaatttcattcctgttgtttcttaaaaacttgttttgcagATTTGCAATGCAGTTGCTGTTGCTGGCTTTCTGAATGCGACTCTTGTAATCCCAAACTTCCATTATCACAGCATTTGGAGGGATCCTAG

upper sequence: GLYMA20G02130.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G14970.1 (Arabidopsis thaliana), 3'ss of exon 3
-----gtaagtgttttctgtacaatctgtttttc-catata-----ttcaaaatgt-gcttaatgtattttt---acttgactcatttattttgtgaatgatatcaattttccgtagGTATGCAATGCAGTTGCTGTTGCTGGCTATCTCAATGCTACCCTTGTATTCCCCAACTTTCATTATCATAGCATATGGAAAGATCCCAG
      |||   | ||   |  |||   |||||  || | |     |||    | | |  |     | || |   |  |||  |  ||   ||||  ||   ||   |||| | ||| |||||||||| |||||||| || ||||| || ||||| ||||||||| | ||||||||||| ||||| ||||||||||||||||| ||
gtaggttaatcatcttacatcaaattgatttttttcacacaagcctttcttgctattgtctggcaaacttgtcaaaggtgaagctgttgacttgtctattccat--gttttacttagATATGCAATGCGGTTGCTGTGGCAGGCTACCTTAATGCGACCCTTGTAATTCCCAACTTTCACTATCACAGCATATGGAAAGATCCGAG

upper sequence: GLYMA20G02130.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G01480.1 (Arabidopsis thaliana), 3'ss of exon 3
--------gtaagtgttttctgtacaatctgtttttccatatatt-caaaatgtgcttaatgtatttttacttgactcatttattttgtgaatgatatca-attttccgtagGTATGCAATGCAGTTGCTGTTGCTGGCTATCTCAATGCTACCCTTGTATTCCCCAACTTTCATTATCATAGCATATGGAAAGATCCCAG
        ||   | |||||   | | |     |||    | ||  |  |||    |||      || |   || |  |  | ||   | |    || ||  || | | ||| |||||||||| |||||||| || || ||||| ||||| || || ||| | ||||||||||| ||||| |||||||||| |||||| ||
gtgggtttgttgatcttttcatgatacttgaaatttatgcacatcgctcaatcattttagcaatcttgtttatgtcaaagctgttgacttatctctaccatgttatgcttagATATGCAATGCGGTTGCTGTGGCAGGATATCTTAATGCAACTCTAGTAATTCCCAACTTTCACTATCACAGCATATGGAGAGATCCAAG

upper sequence: GLYMA20G02130.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0011g05000.t01 (Vitis vinifera), 3'ss of exon 3
------------------------gtaagtgtttt----ctgtacaatctgtttttccatatattcaaaatgtgcttaatgtatttttacttg-actcatttattttgtgaatgatatcaattttccgtagGTATGCAATGCAGTTGCTGTTGCTGGCTATCTCAATGCTACCCTTGTATTCCCCAACTTTCATTATCATAGCATATGGAAAGATCCCAG
                         | ||| || |    || |  ||    |||||||    |   || |||| | |  |||| ||||| |   ||  |||   |  |||| |  |||||||  |  |||| || |||||||||||||||| || |||||||| ||||| || ||| || ||||| | ||||||||||||||||| |||| |||||||||
gttgttttctttttccccctccattttagtcttcttacactttttaaagattttttcctcgga---aagatgtccatcttgtagttttattgacacatattctgtacgtgattactatcaatactttgtagATAGGCAATGCAGTTGCTGTGGCGGGCTATCTTAATGCAACACTTATAATCCCCCATTTTCATTATCATAGCATTTGGAGAGATCCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatgtatttttacttgactcatttattttgtgaatgatatcaattttccgtagGTATGCAATGCAGTTGCTGTTGCTGGCTATCTCAATGCTACCCTTGTATTCCCCAACTTTCATTATCATAGCATATGGAAAGATCCCAG
             acttgac  putative branch site (score: 4)
                                             ttttccgt  putative PPT
                      atttattttgtgaatg  TA-rich tract