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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctaaaaattattttttgtacttccatttaaatcatctgtaaatttttgaattttcacgaactgcatttgtacaatacgagttcttgcacttcccttccatcttaattataccttgtgtgcttttcagTCAATTACAAAAGCCTATGGAAGAGTTGATCCTGACGGTTCTCGATATTTACTTGGTGACCATACAGGGTTGGTTAGCCTACTTGTAATAATCCATGAGA

Basic information

species Glycine max
transcript GLYMA08G13680.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 9
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatgctaaaaattattttttgtacttccatttaaatcatctgtaaatttttgaattttcacgaactgcatttgtacaatacgagttcttgcacttcccttccatcttaattataccttgtgtgcttttcagTCAATTACAAAAGCCTATGGAAGAGTTGATCCTGACGGTTCTCGATATTTACTTGGTGACCATACAGGGTTGGTTAGCCTACTTGTAATAATCCATGAGA
      |||   |  ||||  ||  |  ||| |   || | |   | ||  | |   ||||   | | |   | |  | |   | || | |||  |  |||| ||            |||| ||   | ||||| || |||||||| |||||||||||||||| ||| |||||| | ||| | |||||||||||| | ||  || ||  ||| ||||| |||| ||||||||
-----gtaagtttgtttttacgttatgtcatatgg-tcctataacatttgataaccgttcagtgagtaccccttttaattttcaattttggcatgtgacttcaat------------ttgtatg---tccagTCCATCACAAAAGCATATGGAAGAGTTGATCTTGATGGTTCTAGGTATCTTCTTGGTGACCATGCCGGACTGATTCACCTGCTTGTTATAACCCATGAGA

upper sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 9
---gtatgctaaaaattattttttgtacttccatttaaatcatctgtaaatttttgaattttcacgaactgcatttgtacaatacgagttcttgcac----ttcccttcca--tcttaattataccttgtgtgc-ttttcagTCAATTACAAAAGCCTATGGAAGAGTTGATCCTGACGGTTCTCGATATTTACTTGGTGACCATACAGGGTTGGTTAGCCTACTTGTAATAATCCATGAGA
   |  | || |||||| ||  ||||  ||   |      || |     |       |    ||  ||   || || |    |    ||  ||| ||    ||  ||| ||   | | |||     |  |||||  || |||||||||||||| |||||||| || |||||| |||| |||||| |||| |||||||| || ||| | ||| |  ||  ||||||||| |||| ||||||||
gtaggttacttaaaattgttgcttgt-tttgtgtcagctccaccccc--acccccacacccccaacaatctcaatttttagttctttgtggttgaaccatgttgacttacaatccctcatttcgtttgatgtgcacttccagTCAATTACAAAGGCCTATGGGAGGGTTGATGCTGATGGTTCTAGATACTTACTTGGGGATCATGCGGGGCTTCTTCACCTACTTGTTATAACCCATGAGA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatacgagttcttgcacttcccttccatcttaattataccttgtgtgcttttcagTCAATTACAAAAGCCTATGGAAGAGTTGATCCTGACGGTTCTCGATATTTACTTGGTGACCATACAGGGTTGGTTAGCCTACTTGTAATAATCCATGAGA
                           tcttaat  putative branch site (score: 3)
                                             tgcttttc  putative PPT
                          atcttaattata  TA-rich tract