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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaacttaaatgtactcttaccattttttgttcagtagtgtcttgaattctctttatcagagctgtagatttagattctggggttctctccagttgattttcagtctagctctgggatgttgaatgccttactcttcaggggtgtgagatctgctttttacttctgatttacagGTTCCTTTCTGCCCAATGGTGGGATCAGAGGTATACTCATCAGAGGTAAAGAAAACTGAGATTTTAATGGAAAATTTCCGACGGGCTATTGGTCTACGTA

Basic information

species Vitis vinifera
transcript Vv06s0004g02910.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os07g08170.1 (Oryza sativa), 3'ss of exon 2
gtacaacttaaatgtactcttaccattttttgttcagtagtgtcttgaattctctttatcagagctgtagatttagattctggggttctctccagttgattttcagtctagctctgggatgttgaatgccttactcttcaggggtgtgagatctgct-ttttac--ttctgatttacagGTTCCTTTCTGCCCAATGGTGGGATCAGAGGTATACTCATCAGAGGTAAAGAAAACTGAGATTTTAATGGAAAATTTCCGACGGGCTATTGGTCTACGTA
                                                                             |    |  ||   ||   || |||||  ||  | ||     |||||  ||  | |  |  |   |  | |   || || | | |||   || |  | ||||||| |||||||| || ||||| |||||||| || || || |||||||| |||||||||||| |  ||||||| ||||||||  | ||||| ||| | ||||
-----------------------------------------------------------------------------tcaatgtcttacatctgcttcatttttggtaaaacttcca-atgtttcat-tcatgttgatggagaatatcttatgtgttatcttattattttactatacagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTATTCCTCAGAGGTCAAGAAAACTGAGGTGCTAATGGAGAATTTCCGTAGAGCTATAGGTTTGCGTA

upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g62040.3 (Oryza sativa), 3'ss of exon 2
gtacaacttaaatgtactcttaccattttttgttcagtagtgtcttgaattctctttatcagagctgtagatttagattctggggttctctccagttgattttcagtctagctctgggatgttgaatgccttactct-tcaggggtgtgagat-ctgctttttacttctgatttacagGTTCCTTTCTGCCCAATGGTGGGATCAGAGGTATACTCATCAGAGGTAAAGAAAACTGAGATTTTAATGGAAAATTTCCGACGGGCTATTGGTCTACGTA
                                                                             || || | || |     | ||   | || ||||  || |   || | || |    | | | ||    |  ||| ||  ||  || |  ||       |||||| || ||||| || |||||||||||||| || || || |||||||| |||||||||||| |  | |||||||||||||| || ||||| ||  | ||||
-----------------------------------------------------------------------------ttatgagttttttgtttgatgccctaca-tctacttcagttttggtaaaagttccaatgtatctaatggttgatatgttgtcttgttatttcataacacagGTCCCCTTCTGTCCTATGGTGGGATCAGAAGTGTATTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTCGAGCTATAGGCTTGCGTA

upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G018697_T02 (Zea mays), 3'ss of exon 2
gtacaacttaaatgtactcttaccattttttgttcagtagtgtcttgaattctctttatcagagctgtagatttagattctggggttctctccagttgattttcagtctagctctgggatgttgaatgccttactcttcaggggtgtgagatctgctttt-tacttctgatttacagGTTCCTTTCTGCCCAATGGTGGGATCAGAGGTATACTCATCAGAGGTAAAGAAAACTGAGATTTTAATGGAAAATTTCCGACGGGCTATTGGTCTACGTA
                                                                             |||| |||  |  |||  |  | |      || |||    |    || |   ||||   |  ||     ||    || | | | |   | |    | ||||| |||||||| || ||||| |||||||| || ||||| || ||||| |||||||||||| |  | ||||||||||||||  | ||||| ||| | ||||
-------------------------------------------------------------------------ggtgttctaggggacagtccgataaaatgcg---cttgctg-aagtcactgtagcacttatgttatagtctaatgtttccttcctctatcactatacaatgcagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCGGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA

upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G032267_T02 (Zea mays), 3'ss of exon 2
gtacaacttaaatgtactcttaccattttttgttcagtagtgtcttgaattctctttatcagagctgtagatttagattctggggttctctccagttgattttcagtctagctctgggatgttgaatgccttactcttcaggggtgtgagatctgctttttacttctgatttacagGTTCCTTTCTGCCCAATGGTGGGATCAGAGGTATACTCATCAGAGGTAAAGAAAACTGAGATTTTAATGGAAAATTTCCGACGGGCTATTGGTCTACGTA
                                                                    | || |   |  ||  | |       | || ||    |  |  || | | || |   ||||  || ||||| |  || |     |       |    |||   | ||||| || ||||| || ||||| |||||||| || ||||| |||||||| |||||||||||| |  | ||||||||||||||  | ||||| ||| | ||||
--------------------------------------------------------------------aaatgttactgatgttgataagctgtgatgcttgctggattcactgtagcattt---atgctataatcttctgatgttt-----ccttcccctgtcactgcaatgcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA

upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G02170.1 (Glycine max), 3'ss of exon 2
gtacaacttaaatgtactcttaccattttttgttcagtagtgtcttgaattctctttatcagagctgtagatttagattctggggttctc-tccagttgattttcagtctagctctgggatgttgaatgccttactcttcaggggtgtgagatctgctttttacttctgatttacagGTTCCTTTCTGCCCAATGGTGGGATCAGAGGTATACTCATCAGAGGTAAAGAAAACTGAGATTTTAATGGAAAATTTCCGACGGGCTATTGGTCTACGTA
                                                                       |||   |     |  |||| | |   || | ||   | |  ||||| | | |||| ||  | || ||||  |    ||| |  |  | |||| | |   | | ||||||||||||||||||||||| || || || || ||||| ||||| |||||||| || ||| || | |||||||||||  ||||||| |||||||| ||||
----------------------------------------------------------------------gtttccctctcaagactctcattctcgtggtgttttttttttctctgtgtt-ttgattg--tgacccttcttgctgctgataa-taatgttta-tgccactctgcagGTTCCTTTCTGCCCAATGGTTGGTTCTGAAGTTTACTCCTCAGAAGTAAAGAAGACCGAGGTTCTCATGGAAAATTTTAGACGGGCCATTGGTCTGCGTA

upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G21830.1 (Glycine max), 3'ss of exon 2
gtacaacttaaatgtactcttaccattttttgttcagtagtgtcttgaattctctttatcagagctgtagatttagattctggggttctctccagttgattttcagtctagctctgggatgttgaatgccttactcttcaggggtgtgagatctgctttttacttctgatttacagGTTCCTTTCTGCCCAATGGTGGGATCAGAGGTATACTCATCAGAGGTAAAGAAAACTGAGATTTTAATGGAAAATTTCCGACGGGCTATTGGTCTACGTA
                                                                                    |||   | |    || | ||| |||     || | ||| || ||     |  |   |  |  |   ||    ||| |   ||   | | ||||| || |||||||| ||||| || || || || ||||| || || |||||||| |||||| || | ||||||||||| |||||||| |||||||| ||||
------------------------------------------------------------------------------------gtttctttctcaagactctcattct----ttgtgttgt-gattgttaccccttcttgctgcttataattaagtttat---tccactctgcagGTACCGTTCTGCCCTATGGTTGGCTCCGAAGTTTACTCCTCGGAAGTAAAGAAGACTGAGGTTCTCATGGAAAATTTTCGACGGGCCATTGGTCTGCGTA

upper sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G22330.1 (Arabidopsis thaliana), 3'ss of exon 2
gtacaacttaaatgtactcttaccattttttgttcagtagtgtcttgaattctctttatcagagctgtagatttagattctggggttctctccagttgattttcagtctagctctgggatgttgaatgccttactcttcaggggtgtgagatctgctttttacttctgatttacagGTTCCTTTCTGCCCAATGGTGGGATCAGAGGTATACTCATCAGAGGTAAAGAAAACTGAGATTTTAATGGAAAATTTCCGACGGGCTATTGGTCTACGTA
                                               |||| |   | ||  |  | |  || |   || |    || | ||||  ||  || || | ||    ||     ||   |  |||   |||   |  | |   |||||  || |  ||||   || |||||||| ||||| |||||||| ||||| ||||| |||||||||||||| |||||||| ||| || | ||||| |||||  |||| || |||||||||||||
---------------------------------------------gtaattttggatgtctcattt-tgtatcttctttgttacattgtttccacatggctt-cattgta----tgaagcttt---tttcttttacttttagcttattttatctggattgt--ttctttcttgcagGTTCCATTCTGTCCAATGGTTGGATCTGAGGTTTACTCATCAGAGGTTAAGAAAACAGAGGTTCTCATGGAGAATTTTAGACGTGCCATTGGTCTACGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaatgccttactcttcaggggtgtgagatctgctttttacttctgatttacagGTTCCTTTCTGCCCAATGGTGGGATCAGAGGTATACTCATCAGAGGTAAAGAAAACTGAGATTTTAATGGAAAATTTCCGACGGGCTATTGGTCTACGTA
                                          ttctgat  putative branch site (score: 3)
                              tctgctttttacttct  CT-rich tract
                                   tttttactt  TA-rich tract