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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaactgttacagatttttttttgggggggttacaatattttcccatctttagttagctgattccaccattctgtaacatgcagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG

Basic information

species Glycine max
transcript GLYMA08G14050.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G14050.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G162881_T01 (Zea mays), 3'ss of exon 3
gtaagtaactgttacagatttttttttgggggggttacaatattttcccatctttagttagctgattccaccattctgtaacatgcagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG
          ||   ||     |  ||       ||| | |||||||  |||   | ||   |  |||     |  | | | ||||||||||||||| || |||||  | || || ||| |  |||||||||||||||| |||||||||||||||
----------gtaggagtgcaatcattta-----ttagattattttcttatcgaaatttctgtttttcacatgtaatctgatatgcagGTTTGTTGAAATAATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGTATGGCATATGATTCAG

upper sequence: GLYMA08G14050.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G24570.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagtaactgttacagatttttttttgggggggttaca-atattttcccatctttagttagctgattccaccattctgtaacatgcagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG
||| ||  |    |  |  | | |         ||| || | || ||   | | ||||| |  |  ||    | ||    || |  ||| || || ||||| |||||||| || || ||| || ||||||||||||| |||||||||||||| |||
gtatgtttcaaaaaacgtctctatcaaactcaagtttcagacatatttaaaccattagtaacttcgttatgtctttaataaaaaaacagATTCGTGGAGATAATGGCTCCTGTATTCTCAAGAGATGCATGGCGCTGCGTGTGGCATATGATCCAG

upper sequence: GLYMA08G14050.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
gtaagtaactgttacagattt--ttttttgggggggttacaatattttcccatctttagttagctgattccaccattct--gtaacatg-cagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG---------------------------------
            ||  ||| |  ||| |         |||||||  |   |||  |   ||     |||      | |   ||  | |  ||||||| | ||||||||||||||||| || ||  || | |||||||| |||||||||||||||||||||                                 
-----------gtatggatctcatttgtcaaaaccaatacaataagtattcatactctcttgatccattaagttttgcacggttccttatcagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT

upper sequence: GLYMA08G14050.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G13000.2 (Arabidopsis thaliana), 3'ss of exon 10
gtaagtaactgttacagatttttttttgggggggttacaatattttcccatctttagttagctgattccaccattctgtaacatgcagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG---------------------------------
||| |||   ||  || || ||  ||         || |    |     |   ||  ||   ||     |  |||||      | ||||||| | ||||||||||||||||| || ||| || |||||||||| || ||||||||||||||||||                                 
gtacgta---gtctcaaatgttcattacaaaaacatagatctatacagtactcttgattccatg----taatattct------tacagGTTTATAGAGATTATGGCTCCAGTATTCTCAAGAGATGCATGGCGTTGCGTGTGGCATATGATTCAGAACGATTTGGTTCACGGTTGGGGTCTTGATTTC

upper sequence: GLYMA08G14050.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 3'ss of exon 5
gtaagta--actgttacagattttttt--ttgggggggttacaatattttcccatctttagttag--------ctgattccaccattctgtaacatgcagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG
 | || |  ||||||     ||||| |  |         | |   ||  ||  |   |   ||||         |  |        | |   | |||||||||||||||||| |||||||| || |||||  || |||||||||| ||||||||||||||| |||||
ttgagcagtactgttgttattttttctgttcattcccactcctgcatggtctgacaatggattagaaacaaaattattagttttccttttccaaatgcagGTTTGTTGAGATCATGGCTCCTGTATTTTCTAGAGATGCATGGCGGTGTGTGTGGCATATGCTTCAG

upper sequence: GLYMA08G14050.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv13s0106g00570.t01 (Vitis vinifera), 3'ss of exon 1
------------gtaagtaa--ctgttacagattttttt--ttgggggggttacaatattttcccatctttagttag--------ctgattccaccattctgtaacatgcagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG
             | || ||  || ||     ||||| |  |         | |   ||  ||  |   |   ||||         |  |        | |   | |||||||||||||||||| |||||||| || |||||  || |||||||||| ||||||||||||||| |||||
gtatgaaaagctttgagcaatactattgttattttttctgttcattcccactcctgcatggtctgacaatggattagaaacaaaattattagttttccttttccaaatgcagGTTTGTTGAGATCATGGCTCCTGTATTTTCTAGAGATGCATGGCGGTGTGTGTGGCATATGCTTCAG

upper sequence: GLYMA08G14050.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 3'ss of exon 10
------------gtaagta--actgttacagattttttt--ttgggggggttacaatattttcccatctttagttag--------ctgattccaccattctgtaacatgcagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG
             | || |  ||| ||     ||||| |  |         | |   ||  ||  |   |   ||||         |  |        | |   | |||||||||||||||||| |||||||| || |||||  || |||||||||| ||||||||||||||| |||||
gtatgaaaagctttgagcagtactattgttattttttgtgttcattcccactcctgcatggtctgacaatggattagaaacaaaattattagtttttcttttccaaatgcagGTTTGTTGAGATCATGGCTCCTGTATTTTCTAGAGATGCATGGCGGTGTGTGTGGCATATGCTTCAG

upper sequence: GLYMA08G14050.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S129_53V6.1 (Physcomitrella patens), 3'ss of exon 10
----------------------gtaagtaact---gttacagatttttttttgggggggttacaatattttcccatctttagttagctgattccaccattctgtaaca-tgcagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG
                      || ||| | |   ||   |  ||  |  || ||  | | | | |   |  |  |   | ||| | |  || |  | || | ||| | ||||| ||||||||||| |||||||| |||||||||||||| |||||||| ||  | ||| | || || |||
gtaataagtcaacctgtatttagttagtgattcgtgtcttaccttcctcctttggtcgttgaaatttactgtctgttagttgttgggtatttacttc-ttgtttaatactgcagATTTGTTGAGATCATGGCTCCTGTGTTTTCACGAAAAGCATGGCGTTGCATCTGGTACATAATACAG

upper sequence: GLYMA08G14050.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S448_20V6.3 (Physcomitrella patens), 3'ss of exon 10
gtaagtaactgtta--cagatttttttttgggggggttacaatat--tttcccatctttag-------ttagctgatt--ccacc-----attctgtaacat-gcagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG
|||| || |    |  || |   |  | ||  ||| | | || ||   ||||  | || ||        | | |  ||   |||      ||| |   | || |||||||||||||||| ||||| || |||||||||||||| |||||||| || || ||| | || || |||
gtaactagccaccaaacaaagcatcatgtgatgggttcataagatggcttccttttttgagattcgtactcgtttgttggtcactgacggattgttcgatatcgcagGTTTGTTGAGATCATGGCACCCGTGTTTTCACGAAAAGCATGGCGTTGCGTCTGGTACATAATACAG

upper sequence: GLYMA08G14050.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ04271 (Selaginella moellendorffii), 3'ss of exon 5
gtaagtaactgttacagatttttttttgggggggttacaatattttcccatctttagttagctgattccacc-attctgtaacatgcagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG---------------------------------
               |  |||| | ||  |    ||  | |  | | || |  ||   |||||  ||| | | | |  ||    | ||| ||||| ||||| ||||||||||| ||||| || || || ||||||||||||||||||||||||||                                  
-------------gtaagttttgtgtttag---tttctatttatcttccttgctt--ctagctatttctatcgactgagtttgctacagATTTGTGGAGATCATGGCTCCAGTTTTTTCGCGCAAGGCCTGGCGCTGTGTGTGGCATATGATTCAAAATGACTTGGTGCATGGCTGGGGACTAGACTTT

upper sequence: GLYMA08G14050.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ32148 (Selaginella moellendorffii), 3'ss of exon 6
gtaagtaactgttacagatttttttttgggggggttacaatattttcccatctttagttagctgattccacc-attctgtaacatgcagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG---------------------------------
               |  |||| | ||      ||| | || | |   |||   |   |||||  ||| | | | |  ||    | ||| ||||| ||||| ||||||||||| ||||| || || || ||||||||||||||||||||||||||                                  
-------------gtaagttttgtgttta----gtttctatttatcttcattgctt-ctagctatttctatcgactgagtttgctacagATTTGTGGAGATCATGGCTCCAGTTTTTTCGCGCAAGGCCTGGCGCTGTGTGTGGCATATGATTCAAAATGACTTGGTGCATGGCTGGGGACTAGACTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttacaatattttcccatctttagttagctgattccaccattctgtaacatgcagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG
                                          ctgtaac  putative branch site (score: 3)
     aatatttt  TA-rich tract