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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattatagtttgcattaataatgctgtaaccttgctttttacatgaatactatctagtatctactttctctgccccactcataactttgtgccttgttttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGTCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC

Basic information

species Glycine max
transcript GLYMA18G02960.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 21
gtattatagtttgcattaataatgctgtaaccttgctttttacatgaatactatctagtatctactttctctgccccactcataactttgtgccttgttttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGTCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
               |    ||  ||   |  |   | || |   || ||  |||       |    | | |     | |  | | |||   | || | || ||||||||||| || |||||||| ||||| ||||| |||||  | |||||||| || || |||||||| || || || |||||||| ||||| |||||  | |
--------------gtatgcaactcttccaattcagtgtt-attggagtatcatcattctcatgtgctatgtatttaaatgcttattttc--ctttatattgtagGTGAACCCTGGAAATGCTCCATTAGTTGTTGGACAGCTACTTGATGATGAGTGCCCTGAAGATTTCATTAAGGGTTTGATTCTGTCTGTCCGTTCTCTCC

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 21
gtattatagtttgcattaataatgctgtaaccttgctttttacatgaatactatctagtatctactttctctgccccactcataactttgtgccttgttttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGTCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
               |    ||  ||   |  |   | || |   || ||  |||       |    | | |     | |  | | |||   | || | || ||||||||||| || |||||||| ||||| ||||| |||||  | |||||||| || || |||||||| || || || |||||||| ||||| |||||  | |
--------------gtatgcaactcttccaattcagtgtt-attggagtatcatcattctcatgtgctatgtatttaaattcttattttc--ctttatattgtagGTGAACCCTGGAAATGCTCCATTAGTTGTTGGACAGCTACTTGATGATGAGTGCCCTGAAGATTTCATTAAGGGTTTGATTCTGTCTGTCCGTTCTCTCC

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 19
gtattatagtttgcattaataatgctgtaaccttgctttttacatgaatactatctagtatctactttctctgccccactcataactttgtgccttgttttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGTCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
    |||      | || |     |||| |  |||    | |          |||| |||| |      | ||    | |  |  |||| || ||||| |  ||||| || || || |||||||| || || |||||||| ||| | ||||||||||| || |||||||| ||||| || ||||||||||||||||||||  | |
---gtatgtacatccttgaagtcactgttattttgggcgtcattct----tcatctggtatttcaagcatttgtttgattgtttccttt-tgtcttgtat-gtagGTCAATCCTGGTAATGCTCCCTTGGTAGTTGGGCAACTTCTGGATGATGAATGCCCGGAAGATTTCATCAAGGGTTTGATTCTCTCTGTTCGTTCTCTGC

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G111355_T01 (Zea mays), 3'ss of exon 1
gtattatagtttgcattaataatgctgtaaccttgctttttacatgaatactatctagtatctactttctctgccccactcataactttgtgccttgttttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGTCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
    |  ||   | | |  |  || |   ||  || |  || | ||  |  |  ||  ||     ||          |    ||| | | |    |  |||  ||||||| || ||||||||||| || || || |||||  |  | ||||||||||| || |||||||||||||| || ||||| ||||||||||||||  | |
---gttcagaaggtagttgtg-tgtttcgactctgttaatt-cgtgcgtcgttcctcataataggttgagtatgagaatggttaattcttttttcttgtttccagGTGAATCCCGGGAATGCTCCATTGGTAGTGGGGCAATTACTTGATGATGAATGCCCTGAAGATTTTATCAAGGGTTTGATCCTCTCTGTTCGTTCTCTCC

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 20
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 21
gtattatagtttgcattaataatgctgtaaccttgctttttacatgaatactatctagtatctactttctctgccccactcataactttgtgccttgttttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGTCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
                          |||       | |||| |    |  ||  ||   |    |||   ||    | | |||  | || |     |||| |||||||| || ||||||||||| ||||| || |||||| |  | ||||| ||||| || ||||||||||| |||||| | ||||| ||||||||||| ||||
--------------------------gtatgtagtttctttagacttttgttaaatatggtaggattttcatgaaagaattata--tatgcgatcccttttgtagGTGAATCCTGGGAATGCTCCCTTAGTTGTGGGGCAGTTGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTAC

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 20
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 21
gtattatagtttgcattaataatgctgtaaccttgctttttacatgaatactatctagtatctactttctctgccccactcataactttgtgccttgttttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGTCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
            | || |    | |||  ||  | ||||| |   |  |    |  ||| | |   || | ||    | | |||  ||||    || | | | |||||||||| ||||||||||| ||||| || |||||| |  | ||||||||||| || ||||||||||| |||||| | ||||||||||||||||| || |
------------gtataaggtttcctgggac--tacttttaatgcgt-tggagttcagttttt---ttttatgaaatatttatacgtttga---ttctgtcaaagGTGAACCCTGGGAATGCTCCCTTAGTTGTCGGGCAGTTGCTTGATGATGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTCTCTGTTCGTTCATTGC

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 21
------------------------gtattatagtttgcatt--aataatgctgtaaccttgc---tttttacatg----aatactatctagtatctactttctctgccccactcataactttgtgccttgttttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGTCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
                        | ||| | | |  | ||    | ||| || |  | ||    |  ||  |||    |||    | |||| |  | ||  |       | | ||  |||| ||| |   || ||||||||||||  | ||||| |||||||| || ||||||||  ||||||||||||||||||||||||| || |||||  | ||||| ||||| || ||  | |
gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttcaatgccctaattaattttagtcttcaattatttgattaaattaattgcttt-tgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatctagtatctactttctctgccccactcataactttgtgccttgttttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGTCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
                             tcataac  putative branch site (score: 2)
                                          ccttgtttt  putative PPT
                                            ttgttttata  TA-rich tract