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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttgtggaccttttcagctttctgatgcttgaagtactttagcttatatttatgttgattaacttaaatttttttgtttgttttcccttctgaaagGTTGGATACAAAGTTCGTCTGGAGGGTATGAAAGGGAGAGATACTCGTCTTCTTTTTTGCACCACGGGTGTATTATTGCGGAGACTGCTTGTGGATAGGA

Basic information

species Glycine max
transcript GLYMA08G05480.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 6
gttagtttgtggaccttttcagctttctg-----atgcttgaagtactttagcttatatttatgttgattaacttaaatttttttgtttgttttcccttctgaaagGTTGGATACAAAGTTCGTCTGGAGGGTATGAAAGGGAGAGATACTCGTCTTCTTTTTTGCACCACGGGTGTATTATTGCGGAGACTGCTTGTGGATAGGA
 | |     |  || |||      | | |     ||| ||| |  | || |   | | ||  ||    ||  ||   ||     ||  || ||  | ||     ||||||| ||||||||||| ||||| || |||| ||| |||||||| || |||||||| |||||||| || ||  | ||||||||| || | ||||| ||||
-tcaccccttatacttttgtgaactgcagctagcatgtttgcaaaatttgatgatcttttcttgagttttgtctatcatgacaatggatgcttatcttt-----agGTTGGCTACAAAGTTCGGCTGGAAGGCATGAGAGGAAGAGATACGCGCCTTCTTTTCTGCACCACTGGAGTCCTGTTGCGGAGATTGTTGGTGGACAGGA

upper sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G48650.2 (Arabidopsis thaliana), 3'ss of exon 6
-------------------------------------------------------------------gttagtttgtggaccttttcagct----ttctgatgct-tgaagtactttagcttatatttatgttgattaacttaaatttttttgtttgttttcccttct---gaaagGTTGGATACAAAGTTCGTCTGGAGGGTATGAAAGGGAGAGATACTCGTCTTCTTTTTTGCACCACGGGTGTATTATTGCGGAGACTGCTTGTGGATAGGA
                                                                    ||  ||| | |   |   ||  |    ||   |  || |||  ||  |     |    | ||||     ||||||      ||  || |   || |||||   | |||||||| |||||||| || || || || |||| |||||||||||| |||||||||||||| || || ||||| ||| |  | ||  | ||||||||| | |
gtaagttttacgctctgtgaccagtttttgtgaatttttttgacactggaatatttaatctacctatattgatttattggaatgaacaaatctgatttcaacactatgacataagtggaagttctataatgtgacaaaacttatggaggttgattcgcactctcttctcttggaagGTTGGCTACAAAGTGCGGCTTGAAGGAATGAGAGGGAGAGATACACGTCTTCTTTTTTGTACAACTGGTGTTTTACTTAGAAGGTTACTTGTGGATCGTA

upper sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 5
--------------------------gttagtttgtggaccttttcagctttctgatgct----tgaagtactttagcttatatttatgttgattaacttaaa--tttttttgtttgttttcccttctgaaagGTTGGATACAAAGTTCGTCTGGAGGGTATGAAAGGGAGAGATACTCGTCTTCTTTTTTGCACCACGGGTGTATTATTGCGGAGACTGCTTGTGGATAGGA
                            | | || ||  | |||| | || ||| |  ||    | ||      ||    | |   | |  ||||||  ||||  | | |   |||  |   | ||   ||||||||| || |||||||| |||||||| ||||||||||| || ||||| |||||||||||||| || ||  |||||||| | ||| | ||||| || || |
gtaagtttctgattgcattttaggaatcttgcttctgatcattttgatctgtctaagactaatgtaaaaatacctataaaaaaaaaaagaagattaatataaaaatatctccatttcatgatcttttctaaagGTTGGTTATAAAGTTCGGCTGGAGGGAATGAAAGGGAGGGACACTCGCCTTCTTTTTTGCACTACTGGCATATTATTGAGAAGATTACTTGTTGACAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttatatttatgttgattaacttaaatttttttgtttgttttcccttctgaaagGTTGGATACAAAGTTCGTCTGGAGGGTATGAAAGGGAGAGATACTCGTCTTCTTTTTTGCACCACGGGTGTATTATTGCGGAGACTGCTTGTGGATAGGA
               gattaac  putative branch site (score: 2)
                           tttttttgtttgtttt  putative PPT
     tatttatgttgattaa  TA-rich tract