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

gtattgaatggttttgtcaattagattattatctttgatcataatattaatttgactgtcaatctatgaagctattcaatggtttactgttgaatcactatctgattgaccaatggtcaaaacgaagctgtctttaatgtttgaacaatttatgaacggctaagtttttctcttattgcccctagcgcagGAGTTGACCCTCCATCATCTCGTGATCCTCCATTTCCTCTTGCTGTTCCAGCATCAAATCAACTTACAAACACTTCGATGGTAGAATCAAATGCTTCTAG

Basic information

species Vitis vinifera
transcript Vv07s0005g05030.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g05030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os02g40430.1 (Oryza sativa), 3'ss of exon 14
gtattgaatggttttgtcaattagattattatctttgatcataatattaatttgactgtcaatctatgaagctattcaatggtttactgttgaatcactatctgattgaccaatggtcaaaacgaagctgtctttaatgtt-tgaacaatttatgaacggctaagtttttctcttattgcccctagcgcagGAGTTGACCCTCCATCATCTCGTGATCCTCCATTTCCTCTTGCTGTTCCAGCATCAAATCAACT-----TACAAACACTTCGATGGTAGAATCAAATGCTTCTAG
                                                             ||   | |||||  | ||| |     || |   ||| ||| |  || |  | |  |    |      |     | || || | || | || |  ||   | |  | ||| |  | || | ||||| ||||||||||| |||||||| ||||||||||||||  | || |||||||   | || ||  | || ||     | || |       || |  | ||  |   ||     
-----------------------------------------------------------gtattctttaagctgcttaattggagtttgctctttcattatgtagtttaaaattcttagctattgctttccgacttatattataaatacttaagaaatctcaatttcttttttcttttcctcctagtgcagGAGTTGATCCTCCATCCTCTCGTGATCCTCCTATCCCACTTGCTGCAACTGCTTCGGACCATCTGTCTTTGCAGAATTCCATATTGCTGGATTCATCCCT-----

upper sequence: Vv07s0005g05030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os04g42840.1 (Oryza sativa), 3'ss of exon 13
gtattgaatggttttgtcaattagattattatctttgatcataatattaatttgactgtcaatctatgaagctattcaatggtttactgttgaatcactatctgattgaccaatggtcaaaacgaagctgtctttaatgtttgaacaatttatgaacggctaagtttttctcttattgcccctagcgcagGAGTTGACCCTCCATCATCTCGTGATCCTCCATTTCCTCTTGCTGTTCCAGCATCAAATCAAC-----TTACA-AACACTTCGATGGTAGAATCAAATGCTTCTAG
                        ||| || |   || | |   | | ||||  ||||| ||   ||  |  |   |     |||  |  || ||  |    | ||||||  |   |   | |      || ||  ||| |  || || | |     |  |    || | || | ||   ||||| ||||| ||||| |||||||| ||||||||||||||  |||| ||||| |   |||| |||||||| |     ||||| ||  |  |  || | || |||  ||       
----------------------gtattcttttaactgctta-gttgtcaatt--actgttaagtaatagaaatggcc-----ttttatcatgtatttcctggtcattgactgacaatattatcatcttagttttctatgataaaaaaaatca-----gttt---cttatttccttttaatcctagtgcagGGGTTGATCCTCCATCGTCTCGTGATCCTCCTGTTCCGCTTGCAGCAACAGCTTCAAATCATCTGTCCTTACAGAATTCAGCACTGCTCGACTCATCTGT------

upper sequence: Vv07s0005g05030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G052078_T02 (Zea mays), 3'ss of exon 13
gtattgaatggttttgtcaattagattattatctttgatcataatattaatttgactgtcaatctatgaagctattcaatggtttactgttgaatcactatctgattgaccaatggtcaaaacgaagctgtctttaatgtttgaacaatttatgaacggctaagtttttctctta---ttgcccctagcgcagGAGTTGACCCTCCATCATCTCGTGATCCTCCATTTCCTCTTGCTGTTCCAGCATCAAATCAACTTACAAACACTTCGAT-GGTAGAATCAAATGCTTCTAG
                                                                                        |  | || | ||  | |||   ||   |  || || |  || | |||     |   ||    ||| || |  | | ||| |   ||    ||   ||||| ||||||||||| |||||||||||||||||||||||  | |  ||||| |  ||||||||||||     ||  |   |     |  | |   |   |  | ||   
----------------------------------------------------------------------------------------ggggcattattaatttattatgcatcagggaacac-attctatttttttcactgatac----tataaaagttttaatttcttatttgcttttaatcctagtgcagGAGTTGATCCTCCATCATCTCGTGATCCTCCTGTGCTGCTTGCAGCACCAGCATCAAAT-GTTCTATCATTGCAGAACTCAGCACTGTTGGACTCATCCCT

upper sequence: Vv07s0005g05030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA03G32710.1 (Glycine max), 3'ss of exon 13
gtattgaatggttttgtcaattagattattatctttgatcataatattaatttgactgtcaatctatgaagctattcaatggtttactgttgaatcactatctgattgaccaatggtcaaaacgaagctgtctttaatgtttgaacaatttatgaacggctaagtttttctcttattgcccctagcgcagGAGTTGACCCTCCATCATCTCGTGATCCTCCATTTCCTCTTGCTGTTCCAGCATCAAATCAACTTACAAACACTTCGATGGTAGAATCAAATGCTTCTAG
                                        | || || | |||  |||| |   |||     ||||      |  | | |     |   ||   |||   |||||||  |   |    ||| |||     |  ||| ||||  || ||||||| ||||||||||||||||||||| |||||||||||||||||||||||||||||||| || || |||   ||||| || ||||| ||||| || |||| | |||  |    |||||||| | ||||  |
--------------------------------------gtacaacataagttttcctgtta---tatatttttatttttacctcaattttcaggacttgatgccatt---caatggttgatctgttagtgttttt-----tcaaactattt--gagcggctaaatttttctcttattgcccctagtgcagGAGTTGACCCTCCATCATCTCGTGATCCACCTTTCCCTGCAGCTGTCCCCGCATCTAATCATCTGACAAGCTCTTTAACAACAGAATCAACTACTTCCGG

upper sequence: Vv07s0005g05030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G04850.1 (Glycine max), 3'ss of exon 13
gtattgaatggttttgtcaattagattattatctttgatcataatattaatttgactgtcaa-tctatgaagctattcaatggt-ttactgttgaatcactatctgattgaccaatggtcaaaacgaagctgtctttaatgtttgaacaatttatgaacggctaagtttttctcttattgcccctagcgcagGAGTTGACCCTCCATCATCTCGTGATCCTCCATTTCCTCTTGCTGTTCCAGCATCAAATCAACTTACAAACACTTCGATGGTAGAATCAAATGCTTCTAG
                                        |  | || | |||   ||| || | |||  |  | ||| |     ||  | | || |   |  |  ||| | |||| |     | || |||     ||  ||||  | | ||| ||| ||||||| ||| ||||||||||||||||| ||||||||||||||||| |||||||||||||| ||||| |||  ||||||  ||||||| ||||| || || | | |||  | |  |||||||| ||| ||| |
--------------------------------------gtaccaaataagtttacttgttaaatatatatattttttctacctcattgttctggacttgttgcc--attcaacaattg-----atgatgctagtgatatggtttttaaactttgtgagcggctaaatttatctcttattgcccctagtgcagGAGTTGACCCTCCCTCATCTCGTGATCCACCATTCCCTGCTGCTGTCACAGCATCTAATCATCTAACTAGCTCTTTAACGACAGAATCAACTGCATCTGG

upper sequence: Vv07s0005g05030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G19230.1 (Glycine max), 3'ss of exon 13
gtattgaatggttttgtcaattagattattatctttgatcataatattaatttgactgtcaa-tctatgaagctattcaatggt-ttactgttgaatcactatctgattgaccaatggtcaaaacgaagctgtctttaatgtttgaacaatttatgaacggctaagtttttctcttattgcccctagcgcagGAGTTGACCCTCCATCATCTCGTGATCCTCCATTTCCTCTTGCTGTTCCAGCATCAAATCAACTTACAAACACTTCGATGGTAGAATCAAATGCTTCTAG
                                        |  | || | |||   ||| || | |||  |  | ||| |     ||  | | || |   |  |  ||| | |||| |     | ||||||     ||  ||||  | | ||| ||| ||||||| ||| ||||||||||||||||| ||||||||||||||||| |||||||||||||| ||||| |||  ||||||  ||||||| ||||| || || | | |||  | || |||||||| |||  || |
--------------------------------------gtaccaaataagtttacttgttaaatatatatattttttctaccacattgttctggacttgttgcc--attcaacaattg-----atgaagctagtgatatggtttttaaactttgtgagcggctaaatttatctcttattgcccctagtgcagGAGTTGACCCTCCCTCATCTCGTGATCCACCATTCCCTGCTGCTGTCACAGCATCTAATCATCTGACTAGCTCTTTAACGGCAGAATCAACTGCAGCTGG

upper sequence: Vv07s0005g05030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA19G35460.1 (Glycine max), 3'ss of exon 13
gtattgaatggttttgtcaattagattattatctttgatcataatattaatttgactgtcaatctatgaagctattcaatggtttactgttgaatcactatctgattgaccaatggtcaaaacgaagctgtctttaatgtttgaacaatttatgaacggctaagtttttctcttattgcccctagcgcagGAGTTGACCCTCCATCATCTCGTGATCCTCCATTTCCTCTTGCTGTTCCAGCATCAAATCAACTTACAAACACTTCGATGGTAGAATCAAATGCTTCTAG---
                                        |  | || | |||  |||| | |   |     ||||   |   | | | || |   ||||  || |    |||||||  |   |    ||| |||     || ||| ||||  || ||| ||| ||||||||||||||||||||| |||||||||||||||||||||||||||||||| || || |||  |||||| || ||||| ||||| || |||| | |||  |    |||||||| | ||||| |   
--------------------------------------gtaccacataagttttcctgttagttattt---ttatttg-tacctcaattttcagg-actagatg-tcattcaatggttgatctgttagtgttttt-----ttaaactattt--gagcggttaaatttttctcttattgcccctagtgcagGAGTTGACCCTCCATCATCTCGTGATCCACCTTTCCCTGCTGCTGTCCCCGCATCTAATCATCTGACAAGCTCTTTAAC---AGAATCAACTACTTCTGGCAT

upper sequence: Vv07s0005g05030.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT2G20190.1 (Arabidopsis thaliana), 3'ss of exon 13
gtattgaatggttttgtcaattagattattatctttgatcataatattaatttgactgtcaatctatgaagctattcaatggtttactgttgaatcactatc-tgattgaccaatggtcaaaa--cgaagctgtctttaatgt---ttgaacaatttatgaacggctaagtttttctcttattgcccctagcgcagGAGTTGACCCTCCATCATCTCGTGATCCTCCATTTCCTCTTGCTGTTCCAGCATCAAATCAACTTACAAACACTTCGATGGTAGAATCAAATGCTTCTAG
                                                                                       | |||| |  || || | ||  |   |  ||        ||| |   ||||||  |    | |   ||   ||  | ||||| || |  |||| || ||||||| |||||||||||||||||||| |||||||||||||| || | |  || || ||||||||| |||   |  ||||  |   |    |  |||||||    |  || 
--------------------------------------------------------------------------------------gtattgagtttctttccttatgaaagtacagtttgtttttgaaacgtcctttaacatgagctaagatatccttgcgcagctaaattgtcttcttttt-cccctagtgcagGAGTTGACCCTCCATCGTCTCGTGATCCTCCTTTCCATGCTGTTGCTCCAGCATCCAATAGTCACACAAGTAGCGCAGCTGCTGAATCAACACATAGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgtttgaacaatttatgaacggctaagtttttctcttattgcccctagcgcagGAGTTGACCCTCCATCATCTCGTGATCCTCCATTTCCTCTTGCTGTTCCAGCATCAAATCAACTTACAAACACTTCGATGGTAGAATCAAATGCTTCTAG
 ctttaat  putative branch site (score: 4)
                             tttttctcttattgcc  putative PPT
        aacaatttat  TA-rich tract