Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtcagcaggtcctattctttgtagtaactgaactatgacagttctttcttgacctttagtggtgcaattacctgctttctgactatgtgttgttgcacagGGAAGATACGACATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTACAG

Basic information

species Glycine max
transcript GLYMA08G01750.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g27790.1 (Oryza sativa), 3'ss of exon 5
------------------gtcagcaggtcctattctttgtagtaactgaactatg---acagttctttcttgaccttta-gtggtgcaattacctgctttc-tgactatgtgttgttgc---acagGGAAGATACGACATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTACAG
                   |    | |   || | ||||||  || | |     |   |||  | |  ||| || |  | |  | |    ||     |||  ||  |  || || || |   | ||||||| ||||| |||||||||||||||||||||||||||||||||||||||||||| ||||||||| | ||||||||||| |||
gtagttttggccttagaccttgtaaagctttagtttttgtatgaattcagtgtcgcgtacatatttaacttaacttacaagaagggttcctataaattttaatgcttcagttttttttctttatagGGAAGGTACGAAATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAG

upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g03820.2 (Oryza sativa), 3'ss of exon 5
------------------gtcagcaggtcctattctttgtagtaactgaactatg---acagttctttcttgaccttt-agtggtgcaattacctgctttctgactatgtgttgttgc---acagGGAAGATACGACATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTACAG
                   |    | |   ||   ||| ||  || | |    ||   |||  | |  ||| || |   ||  | |    ||     |||    ||     ||||| |   | ||||||| ||||| |||||||||||||||||||||||||||||||||||||||||||| ||||||||| | ||||||||||| |||
gtagttttggccttagaccttgtaaagctttagcttttctatgaattcagtgttgcctacatatttaacttaacttacgagaagggttcctataaattttaatgcttcagattgtttctttatagGGAAGGTACGAAATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAG

upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G111579_T01 (Zea mays), 3'ss of exon 4
--gtcagcaggtcctattctttgtagtaactgaactatgacagttctttcttgacctttagtggtgca-attacctgctttctgactatgtgttgttgcacagGGAAGATACGACATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTACAG
  | | | | | |  || || |  | |   | |  |||| |  ||      ||||  ||| || | ||  | || |    |   |  |    ||| |    ||||||||||||| || ||||||||||||||||||||||||||  ||||||| ||||| ||||||||| ||||||| ||||| |||
atgactg-atgactcatactgtagatttgttcagatatgcc--ttaggcaatgactgttactgtttcatgtaacatctaatgaaaacaataattggtttgtagGGAAGATACGAAATAATGAGGAATTACATGCCTAAAGTTGGTACTCTTGGCCTTGATATGATGTTCCGGACATGTACTGTGCAG

upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G459896_T01 (Zea mays), 3'ss of exon 3
gtcagcaggtcctattctttgtagtaactgaactatgacagttctttcttgacctttagtggtgcaattacctgctttctgactatgtg-ttgttgcacagGGAAGATACGACATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTACAG
                                              |  ||||  ||| || |    ||   |    ||| |  |  |  |||      ||||||||||||| || ||||||||||||||||||||||||||  ||||||  ||||| ||||||||| | ||||| |||||||||
---------------------------------------------gtaatgactattactgtt----ttgtgtaacatctaatgaaataattggcttgtagGGAAGATACGAAATAATGAGGAATTACATGCCTAAAGTTGGTACTCTTGACCTTGATATGATGTTCCGAACATGTACTGTACAG

upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G020096_T01 (Zea mays), 3'ss of exon 4
--gtcagcaggtcctattctttgtagtaactgaactatgacagttctttcttgacctttagtggtgcaattacctgctttctgactatgtgttgttgcacagGGAAGATACGACATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTACAG
  |  | |      ||  |||  |   |  ||   || | |  ||       ||  |||| || | |    |       |   |  |    | |      ||||||||||| | || ||||||||||||||||||||||||||  | ||||| ||||| ||||||||| ||||||| ||||| |||
ctgataactcactgtagccttgttcagatatgccttagggc--ttaggcaacgatttttactgtttcgtgaaaacctgatgaaaacaatcatcggcttgtagGGAAGATACAAAATAATGAGGAATTACATGCCTAAAGTTGGTACCCTTGGCCTTGATATGATGTTCCGGACATGTACTGTGCAG

upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 5
lower sequence: AC183590.4_FGT001 (Zea mays), 3'ss of exon 2
gtcagcaggtcctattctttgtagtaactgaactatgacagttctttcttgacctttagtggtgcaattacctgctt----tctgactatgtg-ttgttgcacagGGAAGATACGACATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTACAG
      |  | ||||  | |      ||   | | | | |   |||| ||| |    |       | |    ||  |    ||| |  |  |  |||      ||||||||||||| || |||||||||||||||||||||||| |  ||||||| ||||| ||||||||| | ||||| ||||| |||
-----tatatactatagtattctaataccatagttttagaaaactttgttggcaaacacgcccttactgttttgtgtaacatctaatgaaataattggcttgtagGGAAGATACGAAATAATGAGGAATTACATGCCTAAAGTTTGTACTCTTGGCCTTGATATGATGTTCCGAACATGTACTGTGCAG

upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G23100.3 (Arabidopsis thaliana), 3'ss of exon 5
-------------------------------------------------------------------------------------gtcagcaggtcctattctttgt-agtaactgaactatgacagttctttcttgacctttagtggtgcaattacctgctttctgactatgtgttgttgcacagGGAAGATACGACATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTACAG
                                                                                     | || | | ||  ||| ||| |  ||   ||   ||    |||| |    ||||   |   |  | ||  |  ||   |      |||||||  ||  ||||| ||||||||||||||||| || |||||||| ||||||||  | ||||| ||||| |||||| || | || || ||||| |||
gtatgacgctttctctattcttaagattgaagaaagttaacatctgtttgtttctaattcagataatattatctgattctacatagccaac-gttcggattatttcttggtgtttgtgtta----agttttcctatgacgagtcaggcagtaag-atttgacatagtgtaatgtgtt-ctgtgcagGGGAGATACGACATTATGAGAAACTACATGCCGAAAGTTGGTACCCTTGGTCTTGATATGATGCTCCGAACGTGTACTGTTCAG

upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g03530.t01 (Vitis vinifera), 3'ss of exon 5
gtcagcaggtcctattctttgtagtaactgaactatgacagttctttcttgacctttagtggtgcaattacctgctttctgactatgtgttgttg-cacagGGAAGATACGACATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTACAG
||       |  |      ||| |    |  | | | |  ||||  | |   ||||| ||  |   ||||| ||| |  ||||   ||||| ||| | |||||||||||||| |||||||||||||||||||| ||||||||||| ||||| ||||| |||||||| || ||||| ||||| |||
gtacttgactttttgatcatgttgcttttccattct-atggttcgatttcagccttttgtactttgattacttgcatattgacatagtgtttttggctcagGGAAGATACGAGATTATGAGGAATTACATGCCCAAAGTTGGCTCACTTGGACTTGATATGATGTTTAGAACATGTACTGTTCAG

upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S28_268V6.1 (Physcomitrella patens), 3'ss of exon 4
--gtcagcaggtcctattctttgtagtaactgaactatgacagttctttcttgacctttagtggtgcaattacctgctttctgactatgtgttgttgcacagGGAAGATACGACATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTACAG
   |    | |     |  |||||   |      ||       |  | || ||        | |     |||       |    | || |||||    |||||| || || || || ||||||||||||||||| |||||||| ||  | || || |||||||||||| | |||||||| || |||
atatttcaatggttggtggtttgtgccagaaaggctggagggataatatcctgggtgcctttcggatcgttagtgaacattctgcaat-tgttgg-aaacagGGCAGGTATGAGATAATGAGGAATTACATGCCGAAAGTTGGATCGTTCGGCCTGGACATGATGTTCCGCACATGCACGGTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttgacctttagtggtgcaattacctgctttctgactatgtgttgttgcacagGGAAGATACGACATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTACAG
                               ttctgac  putative branch site (score: 2)
                    aatta  TA-rich tract