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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtctctttccgtagagttgatattgcaatatttatgggaaagcctttagtgtagccccatgctggtggttatgtctggtccttgtgtattgacgtttggtccttgtgtatttagGTGCTTAGGTATCTTCTTTCCAACGCGAGATGGTGGCTGGAAGAATACAAGTTTGATGGGTTCAGATTTGATGGTGTGACTTCCATGATGTACACTCATC

Basic information

species Arabidopsis thaliana
transcript AT2G36390.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G36390.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: LOC_Os02g32660.1 (Oryza sativa), 3'ss of exon 12
gtatgtctctttccgtagagttgatattgcaatatttatgggaaagcctt-tagtgtagccccatgctggtggttatgtctggtccttgtgtattgacgtttggtccttgtgtatttagGTGCTTAGGTATCTTCTTTCCAACGCGAGATGGTGGCTGGAAGAATACAAGTTTGATGGGTTCAGATTTGATGGTGTGACTTCCATGATGTACACTCATC
                   ||    |   |  || |          | ||  |  ||| |   || |   ||  |   |||      ||| |    || |||    | |   |||  |||| || || | ||| || ||||| || ||||||||||| || || || ||||||||||| ||||||||||| ||||| || || ||||||||||||||||
-------------------gtaaggaacacgttaatcgctacttccctttacaaagtatcattattcatatgcattaatctctattgtgtttgccaacatttttatcct---tatacagGTTCTAAGATTTCTACTATCCAATGCAAGATGGTGGCTCGAGGAGTATAAGTTTGATGGTTTCAGATTTGACGGTGTAACCTCAATGATGTACACTCATC

upper sequence: AT2G36390.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GRMZM2G032628_T01 (Zea mays), 3'ss of exon 12
gtatgtctctttccgtagagttgatattgcaatatttatgggaaagcctttagtgtagccccatgctggtggttatgtctggtccttgtgtattgacgtttggtccttgtgtatttagGTGCTTAGGTATCTTCTTTCCAACGCGAGATGGTGGCTGGAAGAATACAAGTTTGATGGGTTCAGATTTGATGGTGTGACTTCCATGATGTACACTCATC
                                ||   |    |||  || || | |      ||  |  |       | |  | | ||| |  |  |      |   |  ||||  ||||  | || | |||||| ||||| || ||||||||||| || ||||| ||||||||||| ||| | |||||||||||||| |||||||||||||||||||
-------------------------------gtacggaacaaaaatgctcta-tctccattaattttattctcctatttttctgcctgtatcgttccaacaattttatccgtatgcagGTTTTAAGATTTCTTCTCTCCAATGCTAGATGGTGGCTCGAGGAATATAAGTTTGATGGTTTCCGTTTTGATGGTGTGACCTCCATGATGTACACTCATC

upper sequence: AT2G36390.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 12
gtatgtctctttccgtagagttgatattgcaatatttatgggaaagcctttagtgtagccccat-gctggtggtt-atgtctggtccttgtgtattgacgtttggtccttgtgtatttagGTGCTTAGGTATCTTCTTTCCAACGCGAGATGGTGGCTGGAAGAATACAAGTTTGATGGGTTCAGATTTGATGGTGTGACTTCCATGATGTACACTCATC
                                         | | | | |  |   |      | |||  | ||| || | |  |   | |  |   |       || || |||    ||||  | || | |||  | || || |||||||||||||| |||||||| || |||||||||||  |||||||||| ||||| ||||||||||| ||||| |
-----------------------------------------gtatgtcatgtgcagaatgtattagctaatagttcatatttattttctatacacacataacaattcattttgtgc--agGTTTTGAGATTTCTATTGTCAAATGCGAGATGGTGGCTTGAAGAATATAAATTTGATGGGTTTCGATTTGATGGGGTGACCTCCATGATGTATACTCACC

upper sequence: AT2G36390.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA03G35020.1 (Glycine max), 3'ss of exon 12
gtatgt-ctctttccgtagagttgatattgcaatatttatgggaaagcctttagtgtagccccatgctggtggttatgtctggtccttgtgtattgacgtttggtccttgtgtatttagGTGCTTAGGTATCTTCTTTCCAACGCGAGATGGTGGCTGGAAGAATACAAGTTTGATGGGTTCAGATTTGATGGTGTGACTTCCATGATGTACACTCATC
||| || ||   |||  ||| || || | |||   ||| ||  |||   ||  ||    ||   || |      || ||             | | || |||  | |||    |||||||| || |||||||| || || ||  | |||||||||||||| ||||||||||||||||| ||  ||||||||||||| || || ||||||||||||||||
gtaagtgctggctccaaagaattcat-tggcatagtttctgacaaaattttccgta---ccttctgttcaacagtaagtg------------acttac-tttaattctta---atttagGTTCTAAGGTATCTACTCTCGAATTCAAGATGGTGGCTGGATGAATACAAGTTTGATGGATTTCGATTTGATGGTGTTACATCAATGATGTACACTCATC

upper sequence: AT2G36390.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA19G37750.2 (Glycine max), 3'ss of exon 12
gtatgt-ctctttccgtagagttgatattgcaatatttatgggaaagcctttagtgtagccccatgctggtggttatgtctggtccttgtgtattgacgtttggtccttgtgtatttagGTGCTTAGGTATCTTCTTTCCAACGCGAGATGGTGGCTGGAAGAATACAAGTTTGATGGGTTCAGATTTGATGGTGTGACTTCCATGATGTACACTCATC
||| || ||   |||  ||| || || | |||   | | ||  |||   ||          | || |      || |||       |     | | || |||  | |||    |||||||| || |||||||| ||||| || ||  ||||||||||||| ||||||||||||||||| ||  ||||||||||||| || || ||||||||||| ||||
gtaagtgctggctccaaagaattcat-tggcatagtatctgaaaaaaattt----------ctatacc-----ttctgttcaacagtaaatgacttac-tttaattctta---atttagGTTCTAAGGTATCTACTTTCGAATGCACGATGGTGGCTGGATGAATACAAGTTTGATGGATTTCGATTTGATGGTGTTACATCAATGATGTACACACATC

upper sequence: AT2G36390.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv08s0007g03750.t01 (Vitis vinifera), 3'ss of exon 12
gtatgtctctttccgta-gagttgatattgcaatatttatgggaaagcctttagtgtagccccatgctggtggttatgtctggtccttgtgtattgacgtttggtccttgtgtatttagGTGCTTAGGTATCTTCTTTCCAACGCGAGATGGTGGCTGGAAGAATACAAGTTTGATGGGTTCAGATTTGATGGTGTGACTTCCATGATGTACACTCATC
              ||| | | |   ||  |||  || | |  | ||  ||| |     |   |||||  |  || | | | ||     ||||  ||    | |||  | ||| ||||||| || || |  |||||||| || || ||||||||||| || || ||||||||||| |||||||||||||||||||||||||||||||||||||| || |
--------------gtatgtgctttgatgccaaagttcaagaaatagtgttttgc---cctttatgctctta-ttgttttttgt-----tgtagggattaattgtctctttgt-tttagGTACTGAGATTCCTTCTTTCAAATGCAAGATGGTGGCTAGATGAGTACAAGTTTGACGGGTTCAGATTTGATGGTGTGACTTCCATGATGTACACACACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctggtggttatgtctggtccttgtgtattgacgtttggtccttgtgtatttagGTGCTTAGGTATCTTCTTTCCAACGCGAGATGGTGGCTGGAAGAATACAAGTTTGATGGGTTCAGATTTGATGGTGTGACTTCCATGATGTACACTCATC
                           tattgac  putative branch site (score: 2)
                                        tccttgt  putative PPT
                                              tgtattta  TA-rich tract