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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgatgcatgaatgtggtagtgctgacattacttgttttgaaattttggccgagcttaccagaatactaaaactctgaaattccagGCAGTGTGGGCATTGGGGAATGTTGCTGGTGACTCTCCTAAGTGTCGTGATCTTGTTCTCAGCCATGGTGCCCTGATCCCACTGTTGGCCCAGTTGAATG

Basic information

species Glycine max
transcript GLYMA09G04430.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G04430.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 4
----------gtatgttgatgcatgaatgtg------gtagtgc--tgacattacttgttttgaaattttggccgagcttaccagaatactaaaactctgaa-----attccagGCAGTGTGGGCATTGGGGAATGTTGCTGGTGACTCTCCTAAGTGTCGTGATCTTGTTCTCAGCCATGGTGCCCTGATCCCACTGTTGGCCCAGTTGAATG
           | |  |||    |   ||||      ||| | |  ||| |||| ||   ||||     | |  |   |||  |   |  | |     ||||     |||  |||| || ||||||||||| |||||||||||||| || |||||||| ||||| ||||||||   | |||||||  || | || ||| | || ||||||||||
gtatccgatcatctcctgacttgtctttgtgctttctgtacttccttgatattattttgattgagtgcattgttggagttattaatgtttttacctcttgaaaaaaaattgaagGCTGTATGGGCATTGGGCAATGTTGCTGGTGATTCCCCTAAGTGCCGTGACCTTGTTCTTGCCAATGGTGCATTGCTGCCTCTGCTAGCACAGTTGAATG

upper sequence: GLYMA09G04430.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 4
--gtatgttgatgcatgaatgtggtagtgctgacattacttgttttgaaattt--------tggccgagct-taccagaatactaaaactctgaaattccagGCAGTGTGGGCATTGGGGAATGTTGCTGGTGACTCTCCTAAGTGTCGTGATCTTGTTCTCAGCCATGGTGCCCTGATCCCACTGTTGGCCCAGTTGAATG
   | | || |  | |   | | ||  |  |   |||   | ||| | | | |        || | | ||  |  |    |  ||||||  |  ||    |||| |||||||| ||||| ||||||||||| || ||||| ||||||||||| |||||||||  | |||||||  |||| || ||| | |||||||||||||
gtatttatttagtcttatcttttgtgct-ttcttattttctatttaggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaa---agGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGACCTTGTTCTCGCCAATGGTGCATTGATGCCTCTGCTAGCCCAGTTGAATG

upper sequence: GLYMA09G04430.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G088231_T01 (Zea mays), 3'ss of exon 4
gtatgttgatgcatgaatgtggtagtgctgacatt-acttgttttgaaattttggccgagcttaccagaatactaaaactctg---------aaattccagGCAGTGTGGGCATTGGGGAATGTTGCTGGTGACTCTCCTAAGTGTCGTGATCTTGTTCTCAGCCATGGTGCCCTGATCCCACTGTTGGCCCAGTTGAATG
   | || || ||    | |||   |  ||   || | ||| | |  |    ||   ||  | ||   ||| |     |||||         || |   |||| |||||||| ||||| ||||||||||| || ||||| ||||| || || |||||||||  | |||||||  |||| || ||| | |||||||||||||
--gtatttattcagtcttttggctttcttgctttttatttgctatttaggagtgtgtgatgtgacagtaatgcattttctctgttttaaaacaattaaaagGCTGTGTGGGCTTTGGGTAATGTTGCTGGCGATTCTCCGAAGTGCCGCGACCTTGTTCTCGCCAATGGTGCGTTGATGCCTCTGCTAGCCCAGTTGAATG

upper sequence: GLYMA09G04430.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S63_171V6.1 (Physcomitrella patens), 3'ss of exon 4
------------gtatgttgat-gcatgaatgtggtagtgctgacattacttgttttgaaattttg-gccgagcttaccagaatactaaaactctgaaattccagGCAGTGTGGGCATTGGGGAATGTTGCTGGTGACTCTCCTAAGTGTCGTGATCTTGTTCTCAGCCATGGTGCCCTGATCCCACTGTTGGCCCAGTTGAATG
            || |    || || ||  |      |||       |||||  | |||  || ||   | |  ||   | ||| |     | |      ||||||| || ||||| ||||| || || ||||||||||||||||| || || |||||||| ||  | ||||| ||  | || ||  || | || ||| | |  |
cataacggtccagtgtaacaattgcttgtttaaaaacgtgaacgtcgtactttatctgagcttctgcatctaatttctaataatgccttgtcccg-----tccagGCTGTTTGGGCTTTGGGCAACGTCGCTGGTGACTCTCCTAAATGCCGGGATCTTGTACTTGGTCATGGAGCTTTAATGCCTTTGCTCGCTCAGCTTACCG

upper sequence: GLYMA09G04430.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S230_50V6.1 (Physcomitrella patens), 3'ss of exon 4
gtatgttgatgca-tgaatgtggtagtgctga-cattacttgttttgaaattt---------tggccgag--cttacc-agaatac-taaaactctgaaattccagGCAGTGTGGGCATTGGGGAATGTTGCTGGTGACTCTCCTAAGTGTCGTGATCTTGTTCTCAGCCATGGTGCCCTGATCCCACTGTTGGCCCAGTTGAATG
      ||||| | |||| ||  |  | || |    || |   |    | |||         || | |    |||||  ||||  | |   ||  ||   || ||||| || |||||||| |||||||| || ||||||||||| |||||  | ||||||||||| | |||||| ||  |||| || ||| | || ||| | | ||
------tgatgtaatgaaggtaatgatactaagtgctattcactcctgagtttcttcaataatgactgtcttcttactgagaacccgtgtcaccttgtttttgcagGCTGTATGGGCATTAGGGAATGTAGCGGGTGACTCTCCAAAGTGCAGAGATCTTGTTCTTAACCATGGCGCTTTGATGCCTCTGCTTGCTCAGCTTACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgttttgaaattttggccgagcttaccagaatactaaaactctgaaattccagGCAGTGTGGGCATTGGGGAATGTTGCTGGTGACTCTCCTAAGTGTCGTGATCTTGTTCTCAGCCATGGTGCCCTGATCCCACTGTTGGCCCAGTTGAATG
                                 tactaaa  putative branch site (score: 1)
     tttgaaatttt  TA-rich tract