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'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtttgtcatacatacttgaaagactcattttcctacatgttgttggctttggtgtattcagtctattgagtgtgatggccataatcattaatgcctattttaatcggcagAACAATAGAGGGAAGGGACGCTTGAAGTATCTCTTGCAGCAGACAGAGATTTTTGCTCATTTTGCCAAGGGTGATCAATCCACATCTCAGAAAAAGACAA

Basic information

species Vitis vinifera
transcript Vv05s0020g01780.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 2
-----------------------gtgtgtttgtcatacatacttgaaagactcattttc-------ctacatgttgttggctttggtgtattcagtctattgagtgtgatggccataatcatt--aatgcctattttaatcggcagAACAATAGAGGGAAGGGACGCTTGAAGTATCTCTTGCAGCAGACAGAGATTTTTGCTCATTTTGCCAAGGGTGATCAATCCACATCTCAGAAAAAGACAA---
                         | | ||  | | || |   |||   || |||  |       ||| || || |  |||||  ||  |||| |  || |  | |||   |  |  |   |   |    ||  || || | |||||||| |  |||||||||||  ||||||||||| ||||||| || || || |||||||||||||| || ||  | ||||| |||    |||| ||  ||    
gtttgataagttcccatatctcctagcgattaacctccaaataggaataccttattgacatgtgatctaaatcttctgtgcttttttgcgttcacttcat-ggctttgagttctgtggtagcttagaatattaaattcatggacagAACAACAAGGGGAAGGGACGTCTGAAGTATCTCCTGCAGCAAACTGAAATATTTGCTCATTTTGCGAAAGGAAACCAATCGACAG---AGAAGAAATCACGTG

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 2
------------------------gtgtgtttgtcataca-tacttgaaagactcattttcctacatgttgttggctttggtgtattcagtcta---ttgagtgtgatggccataatcattaatgcctattttaatcggcagAACAATAGAGGGAAGGGACGCTTGAAGTATCTCTTGCAGCAGACAGAGATTTTTGCTCATTTTGCCAAGGGTGATCAATCCACATCTCAGAAAAAGACAA
                         |     || | | ||  || ||| |       |    | ||  |  ||   ||     |  |  |  ||   ||| || || || |  |   |  | ||   ||||||  |   |||||||||| |||||| ||||| |||||||| ||  ||||||| || || || ||||| ||||||||||| ||  | ||||| | |    |||||  |    
gtttgctcctataagaatccgtcaatacaaatgcctttcagcacatgatatggcatatcatgtgcacataatttatttcaacctgctttgaatacctttgtgtatgttgccttttgcc-ctgattaatattttt-ttaacagAACAATAAAGGGAAAGGACGATTGAAGTACCTACTGCAGCAAACTGAAATATTTGCACATTTTGCCAAAGGGAACCAATCAAAAGAGAAGAAACCGCGTG

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 2
gtgtgtttgtcatacatacttgaaagactcattttcctacatgttgttggctttggtgtattcagtctattgagtgtgatggccataatcattaatgcctattttaatcggcagAACAATAGAGGGAAGGGACGCTTGAAGTATCTCTTGCAGCAGACAGAGATTTTTGCTCATTTTGCCAAGGGTGATCAATCCACATCTCAGAAAAAGACAA---
       | | ||||   ||| |||       |    ||||  |   ||| ||        | |  |  ||  |  | ||     |  || || || | ||| ||  ||  |||||||||| |||||||||||| |||||||| ||  | ||||||||||| || |||||||| ||||| || ||   ||| ||||      |||||||| ||    
------gtat-atactgtctttaaatggatcctcatgtacaattgcatggtttgcacaggattaaccatttaggcttaatatatgttgtc-ttgat-cttatatttctcaacagAACAATAAAGGGAAGGGACGGTTGAAGTACCTTCTTCAGCAGACAGAAATATTTGCTCACTTTGCAAAAGGAAGTCAGTCCAA---CGAGAAAAAGCCACGCG

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 2
gtgtgtttgtcatacatacttgaaagactcattttcctacatgttgttggctttggtgtatt-cagtctattgagtgtgatggccataatcattaatgcctattttaatcggcagAACAATAGAGGGAAGGGACGCTTGAAGTATCTCTTGCAGCAGACAGAGATTTTTGCTCATTTTGCCAAGGGTGATCAATCCACATCTCAGAAAAAGACAA
                     | | |  |  || |   |||  |      ||||  ||||||  ||| |||||| | |||| || | | | | | |  |      ||||  ||||||||||||||||||||| ||  |||||||||||||||||||||| ||| | |||||||||||||| || || ||||||||  | |||||||| ||| |||
---------------------gtacgtttagttctgtgacaattcaacttctttt-tgtattatagtgtattga-tatgatcgcta-agtaaatgaaccgacaactaat--gcagAACAATAGAGGGAAGGGGCGTCTGAAGTATCTCTTGCAGCAGACTGAGCTGTTTGCTCATTTTGCAAAAGGGGATCAATCTTCGTCTCAGAAGAAGTCAA

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 2
gtgtgtttgtcatacatacttgaaagactcattttcctacatgttgttggctttggtgtattcagtctattgagtgtgatggccataatcattaatgcctattttaatcggcagAACAATAGAGGGAAGGGACGCTTGAAGTATCTCTTGCAGCAGACAGAGATTTTTGCTCATTTTGCCAAGGGTGATCAATCCACATCTCAGAAAAAGACAA
||  ||||        | ||   | |||  |||   || | | ||||    | | |||||||||          | |||| || | | | | | |  |    | ||||  ||||||||||||||| ||||| ||  |||||||||||||||||||||| ||| | |||||||||||||| || || ||||||||  | ||||| || ||| |||
gtacgttta------gttctgtgatgaca-attcaacttctttttgt--attatagtgtattca----------tatgatcgcta-agtaaatgagccgacatctaat--gcagAACAATAGAGGAAAGGGGCGTCTGAAGTATCTCTTGCAGCAGACTGAGTTGTTTGCTCATTTTGCAAAAGGGGATCAATCTTCTTCTCAAAAGAAGTCAA

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 2
--gtgtgtttgtcatacatacttgaaagactcattttcctacatgttgttggctttggtgtattcagtctattgagtgtgatggccataatcattaatgcctat-tttaatcggcagAACAATAGAGGGAAGGGACGCTTGAAGTATCTCTTGCAGCAGACAGAGATTTTTGCTCATTTTGCCAAGGGTGATCAATCCACATCTCAGAAAAAGACAA---
  |||||| |||  ||  || ||     |   || |    ||  | || |   | |  | |||   || | || | |    |    | ||| | |||    ||| ||| ||  |||||| |||||||| |||||  | ||||| |||||| | ||||| || ||| | ||||||||||||||||||||||| |||||    ||||| || ||| |||   
gtgtgtgtgtgtgttaattatttactgtaa--atgtgatgactgggtgatttttcttctttat--ggtttgttcatttatttttttaaaataaataactgttatgtttgat--gcagAATAATAGAGGAAAGGGCAGATTGAACTATCTCCTACAGCAAACTGAGCTGTTTGCTCATTTTGCCAAGGGTGACCAATCT---TCTCAAAAGAAGGCAAAGG

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 2
gtgtgtttgtcatacatacttgaaagactcattttcctacatgttgttggctttggtgtattcagtctattgagtgtgatggccataatcattaatgcctat-tttaatcggcagAACAATAGAGGGAAGGGACGCTTGAAGTATCTCTTGCAGCAGACAGAGATTTTTGCTCATTTTGCCAAGGGTGATCAATCCACATCTCAGAAAAAGACAA---
|| ||| |||  ||  || ||     |    |  |           ||  |||   | ||||  ||   ||   | |  |     |||| | ||||   ||| ||| ||  |||||| ||||| || |||||  | ||||| |||||| | ||||| || ||| | ||||||||||||||||||||||| |||||    ||||| |||||| |||   
gtatgtgtgtgttaattatttactgtaaatgtgatgacggggtgatttttcttctttatattgggttcgtttgattttttt----taataaataattgttatgtttgat--gcagAATAATAGGGGAAAGGGCAGATTGAACTATCTCCTACAGCAAACTGAGCTGTTTGCTCATTTTGCCAAGGGTGACCAATCT---TCTCAAAAAAAGGCAAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcagtctattgagtgtgatggccataatcattaatgcctattttaatcggcagAACAATAGAGGGAAGGGACGCTTGAAGTATCTCTTGCAGCAGACAGAGATTTTTGCTCATTTTGCCAAGGGTGATCAATCCACATCTCAGAAAAAGACAA
                                          ttttaat  putative branch site (score: 3)
                                      cctatttt  CT-rich tract
                         ataatcattaat  TA-rich tract