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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttaaaaattattttttgtacttccatttaaatcatctgtgaattttttaattttcacaaactgcatttgtacaatacgagttattggacttcccttccatcttaattataccttttgtgcttttcagTCAATTACAAAAGCCTATGGAAGAGTTGATCCTGATGGTTCTAGATATTTACTTGGTGACCATACAGGGTTGCTTAGCCTACTTGTAATAACCCATGAGA

Basic information

species Glycine max
transcript GLYMA05G30530.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G30530.1 (Glycine max), 3'ss of exon 9
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatgttaaaaattattttttgtacttccatttaaatcatctgtgaattttttaattttcacaaactgcatttgtacaatacgagttattggacttcccttccatcttaattataccttttgtgcttttcagTCAATTACAAAAGCCTATGGAAGAGTTGATCCTGATGGTTCTAGATATTTACTTGGTGACCATACAGGGTTGCTTAGCCTACTTGTAATAACCCATGAGA
         || ||  |||||          |||  |||| ||    |  | |||  ||    ||| |  ||     | |||   || ||    |||  ||    | |     | |  |||||  | | ||||| || |||||||| |||||||||||||||| |||||||||||| ||| | |||||||||||| | ||  || ||  ||| ||||| |||||||||||||
-------gtaagtttgtttttacg-------ttatgtcatatg---gtcctataacatttgataaccg--ttcagtgagtacccctt-ttaattttcaattttggcatgtgacttcaatttgta-tgtccagTCCATCACAAAAGCATATGGAAGAGTTGATCTTGATGGTTCTAGGTATCTTCTTGGTGACCATGCCGGACTGATTCACCTGCTTGTTATAACCCATGAGA

upper sequence: GLYMA05G30530.1 (Glycine max), 3'ss of exon 9
lower sequence: AT4G05420.1 (Arabidopsis thaliana), 3'ss of exon 9
----gtatgttaaaaattattttttgtacttccatttaaatcatctgtgaattttttaattttcacaaactgcatttgtacaatacgagttattggacttcccttccatcttaattataccttttgtgcttttcagTCAATTACAAAAGCCTATGGAAGAGTTGATCCTGATGGTTCTAGATATTTACTTGGTGACCATACAGGGTTGCTTAGCCTACTTGTAATAACCCATGAGA
    ||   || ||  | || |    | |||   |  | |   |   |||   ||   ||||   |     | | |  |    |  |  || || |  |    | | | ||| |||     ||| ||    | ||||| || || ||||| |||||||||||||||  |||||| ||||||||| | |||||||||||| | ||  || ||   || ||||| ||||| || ||||
gtaagttctttcaacgtaatctcacctgcttttgtaaacaagttgcttgagagttgagatttctgcgg---gtactccttttttttgttttcttagtttgatatgcgaccttcatt-----tttcgta---tccagTCCATCACTAAAGCATATGGAAGAGTTGATGTTGATGGCTCTAGATATCTTCTTGGTGACCATGCTGGAATGATTCATCTGCTTGTTATAACGCACGAGA

upper sequence: GLYMA05G30530.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 9
gtatgtta---aaaattattttttgtacttccatttaaatcatctgtgaattttttaattttcacaaactgcatttgtacaatacgagttattggac----ttcccttcca--tcttaattataccttttgtgc-ttttcagTCAATTACAAAAGCCTATGGAAGAGTTGATCCTGATGGTTCTAGATATTTACTTGGTGACCATACAGGGTTGCTTAGCCTACTTGTAATAACCCATGAGA
||| ||||   |||||| ||  ||||  ||    | |  ||  |    |       |      |||| ||  |||| ||   |    ||  ||| ||    ||  ||| ||   | | |||     |  |||||  || |||||||||||||| |||||||| || |||||| |||||||||||||||| |||||||| || ||| | ||| | |||  ||||||||| |||||||||||||
gtaggttacttaaaattgttgcttgt--tttgtgtcagctccacccccacccccacacccccaacaatctcaattttta-gttctttgtggttgaaccatgttgacttacaatccctcatttcgtttgatgtgcacttccagTCAATTACAAAGGCCTATGGGAGGGTTGATGCTGATGGTTCTAGATACTTACTTGGGGATCATGCGGGGCTTCTTCACCTACTTGTTATAACCCATGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatacgagttattggacttcccttccatcttaattataccttttgtgcttttcagTCAATTACAAAAGCCTATGGAAGAGTTGATCCTGATGGTTCTAGATATTTACTTGGTGACCATACAGGGTTGCTTAGCCTACTTGTAATAACCCATGAGA
                           tcttaat  putative branch site (score: 3)
                                      ccttttgtgcttttc  putative PPT
                             ttaattatacctttt  TA-rich tract