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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatgaagtcatgaaccttttctggtccatttgtttgtctatatatctcttgatgcatttgcttgaagacacttttctttgtatatttcatgatttcttacttagaagaccactgaagctcttatacaacatgattttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA

Basic information

species Glycine max
transcript GLYMA13G43680.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G124886_T04 (Zea mays), 3'ss of exon 5
gtacatgaagtcatgaaccttttctggtccatttgtttgtctatatatctcttgatgcatttgcttgaagacacttttctttgtatatttcatgatttcttacttagaagaccactg-aagctcttatacaacatgattttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA
                                                              |  ||   || |   | | ||| |  ||| ||  | | |     || |   |||  | |||  ||| ||| |  | ||| ||||| | ||||| || ||||||||||| || || |||||||||||||| || ||||||||||| || ||||| || || || ||||||||||| || |||||
--------------------------------------------------------------gtatgctcacccaactttctgtgtgcttcttg--tccgt-----gaggtttacttcatgctaatattcaataacaattt-cagTTCGTTCGGCTAAATTTATTGCACGTAAGCAATGGGTTGTTGCTGGTGCCGATGATATGTTCATCCGTGTGTACAACTATAACACAATGGACAAGGTCAA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G141587_T01 (Zea mays), 3'ss of exon 5
gtacatgaagtcatgaaccttttctggtccatttgtttgtctatatatctcttgatgcatttgcttgaagacacttttctttgtatatttcatgatttcttacttagaagaccactgaagctcttatacaacatgattttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA
                                                              |  || | |  |  || | ||  |  |||     |  |  |||||     ||   | |||  ||| | | |  | ||| ||||| | ||||| || ||||||||||| || || |||||||||||||| || || |||||||| || ||||| || || || ||||||||||| || |||||
--------------------------------------------------------------gtatgcacaaccaattttctgcttgcttc-----tcttcccttaggtttacatc-atgctgatattccataacaattt-cagTTCGTTCGGCTAAATTTATTGCACGTAAGCAATGGGTTGTTGCTGGTGCCGACGATATGTTCATCCGTGTGTACAACTATAACACAATGGACAAGGTCAA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 6
gtacatgaagtcatgaaccttttctggtccatttgtttgtctatatatctcttgatgcatttgct--tgaagacacttttctttgtatatttcatgatttcttacttagaagaccactgaagctcttatacaacatgatt-ttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA
                                   |  |||||   |       |         |  ||   ||| |||||| | |  ||||  || |||  | |          | | | |||| | || | |||| |  |||||||| | ||||| || ||||||||||  || || |||||||||||||| || ||||| ||||| || ||||| ||||| || || || |||||||| |||||
-----------------------------------tgagtctaagaagactcaaacaagcccattactgtctacagttttctgtatgcattt-gtgtttttgtgc----------aattatgctcatgta-accatgttaattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 5
gtacatgaagtcatgaaccttttctggtccatttgtttgtctatatatctcttgatgcatttgcttgaagacacttttctttgtatatttcatgatttcttacttagaagaccactgaa---gctcttatacaacatgattttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA
                        |   |   || | |   | | | ||| ||| |  |||   || |||    ||||  |||||| |   | |   || |   |||      ||| |    ||| || || |  |||| ||||||||| | || ||||||||| | ||||| || || |||||||| || ||||| |||||||||| ||| |||||||| ||||||||||| ||||| || || ||
-----------------------gtatacggcttttgttcttttgtgtcttttgttatattg--ttcaag----tttttgttgtatgtactaagtactcgtgtctagtttgttacttattctgcttttttatattatgactttgcagTTCGGTCAGCCAAGTTTGTAGCACGAAAGCAATGGGTTGTCGCAGGAGCTGATGATATGTATATCCGTGTATACAATTACAACACCATGGACAAGGTTAA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 5
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
gtacatgaagtc-atgaaccttttctggtccatttgtttgtctatatatctcttgatgcatttgcttgaagacacttttctttgtatatttcatgatttcttacttagaagaccactgaagctcttatacaacatgattttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA
||| |  ||||  |||| | | ||||| |    |||||     ||| || | |     || |||||       |  || | ||||||| |   |   |  |             ||||||  |  ||||     ||| ||||||||||| ||||||||||||||| | ||||| || |||||||| |||||||| ||||||||||  || |||||||| |||||||| |||||||| || |||||
gtataacaagtttatgagcatcttctgatttcattgtt-----atagattttt-----cacttgct-----gtatattgccttgtatagtctgtcgctgtt-------------actgaaatttatata-----tgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 9
gtacatgaagtcatgaaccttttctggtccatttgtttgtctatatatctcttgatgcatttgcttgaagacacttttctttgtatatttcatgatttcttacttagaagaccactgaagctcttatacaacatgattttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA
                                                           | || |  |   ||  | || |||| |  ||| |  | | |  |  |  |      |||| ||||         |   | ||||||| | || || ||||| |||||||| || ||||||||||| |||||||| ||||| |||||||||||||| || || |||||||| ||||||||  ||||
----------------------------------------------------------gtatgatatatagca--tctcattgt-tccttcttattctttcgcacatcat-ttgttgaatctctgtcctggtgt---tgtgcagTTCGGTCAGCAAAGTTCATTGCACGGAAGCAGTGGGTTGTAGCTGGAGCTGATGACATGTTTATTCGTGTCTACAACTACAACACTATGGATAAGATCAA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 5
gtacatgaagtcatgaaccttttctggtccatttgtttgtctatatatctcttgatgcatttgcttgaagacacttttctttgtatatttcatgatttcttacttagaagaccactgaa-gctcttatacaacatgatt-ttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA
    ||| |  |||| || || |||| | |     | || || ||| |    ||||  | || | |  |  || ||||  |     |||||    | ||||| |   |||   | |  | | |   ||   |||| ||  |||||||||| || || |||||||| |||||||| || ||||||||||||||||| ||||||||||||||||||||||| ||||| |||||||||||||| || ||
--gtatgta--catgtactttatctgtttc---catatg-ctctatttggtgtgattgaattcccttgatccatttttactca---atttc----tctcttattggtaaggttattacatgtttcaattttacattatcattgcagTTAGGTCAGCGAAGTTTATAGCACGCAAGCAATGGGTTGTTGCTGGAGCTGATGATATGTTTATTCGTGTATACAATTATAACACAATGGATAAGGTTAA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 5
gtacatgaagtcatgaaccttttctggtccatttgtttgtctatatatctcttgatgcatttgcttgaagacacttttctttgtatatttcatgatttcttacttagaagaccactgaagctcttatacaacatgattttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA
                                                           | || ||    | || |  ||||  || | ||  |  ||   | |   ||   || | |    | | ||   |||    |||||||  | || || || ||||| || || || |||||||| ||||||||||| ||||| |||||||| |||||||| |||||||| || |||||||| || | 
----------------------------------------------------------gtatg-ttattcatacatgacttttaatttctccagtcttggca-tggtaatttcattta----catctaaggcatctgcttgcagTCCGGTCAGCAAAATTTATAGCTCGTAAGCAGTGGGTGGTTGCTGGAGCTGATGACATGTTTATCCGTGTATACAATTACAATACTATGGATAAGGTTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatgatttcttacttagaagaccactgaagctcttatacaacatgattttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA
       ttcttac  putative branch site (score: 2)
     atttctta  TA-rich tract