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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