Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattaactgtgtcctttcccagttttctccatgtacacatcccatataactaagtttctcacaattgcttgccatttgtacagCTGCTGCAGCTTCTCTCTGTGTTCAAGTGAAGGGGGCCATTCCAAGCATGCCTGACAGACGGTCAGTTTTGGATCTTCTACAGACCTGTTGA

Basic information

species Vitis vinifera
transcript Vv19s0014g00180.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g00180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g47550.1 (Oryza sativa), 3'ss of exon 3
----------------------gtaagattaactgtgtcctttcccagttttctccatgtacacatcccatataactaagtttctcacaattgcttgccatttgtacagCTGCTGCAGCTTCTCTCTGTGTTCAAGTGAAGGGGGCCATTCCAAGCATGCCTGACAGACGGTCAGTTTTGGATCTTCTACAGACCTGTTGA---------
                      || |  || | ||       |  |   ||  || |  |   ||| |  |     | ||  |   |       ||   | ||   |||||||||| || ||||| ||||||||||| ||||| ||||| || |||||||||||| ||   |||||  |||| |||||  | | ||||| |         
gtactgaaagcaccctctcctcgtcat-ttgattgcaattgatttcttgttcttcaacattagcatactttgc--ttgaggcttcaatttccaatttttaattt--cagCTGCTGCTGCATCTCTATGTGTTCAAGTAAAGGGAGCCATACCCAGCATGCCTGACCGAAAATCAGTAATGGACCTTCTGGA-ATCTGTTCAGGTTGAATA

upper sequence: Vv19s0014g00180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G178346_T02 (Zea mays), 3'ss of exon 1
gtaagattaactgtgtcctttcccagttttctccatgtacacatcccatataactaagtttctcacaattgcttgccatttgtacagCTGCTGCAGCTTCTCTCTGTGTTCAAGTGAAGGGGGCCATTCCAAGCATGCCTGACAGACGGTCAGTTTTGGATCTTCTACAGACCTGTTGA---------
||| ||  |||   ||||| | | |  |||  ||   |      |    ||   | | ||  |  |   | | | ||       |||||||||| || ||||| ||||||| ||| |||||||| || || |||||||||||||||   || ||  || | |||||  | | |||| |          
gtacga--aaccacgtcctcttcaatatttgaccgactggtttccttgcatc-ttgatttgatagcttctacgttcctgaatcccagCTGCTGCCGCCTCTCTGTGTGTTCGAGTAAAGGGGGCTATACCCAGCATGCCTGACAGAAAATCGGTGATGAAGCTTCTGGA-ATCTGTGGGAGTCGAATA

upper sequence: Vv19s0014g00180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G33850.1 (Glycine max), 3'ss of exon 3
gtaagattaactgtgtcctttcccagttttctccatgtacacatcccatataactaagtttctcacaattgcttgccatttgtacagCTGCTGCAGCTTCTCTCTGTGTTCAAGTGAAGGGGGCCATTCCAAGCATGCCTGACAGACGGTCAGTTTTGGATCTTCTACAGACCTGTTGA
||  |  |    |  | |  | |   |||| ||  | || ||||  |   |    ||  |  ||  || |         |   |||||||||||||||| ||||||||||||||||||||| |||  ||| ||||||||||| ||    ||                            
gtgtgtatggtggaatgcaattc---ttttttctttctagacatttctctttggaaaaatgttcctaactatgatgttctgcaacagCTGCTGCAGCTTGTCTCTGTGTTCAAGTGAAGGGAGCCTCTCCCAGCATGCCTGATAGGAAATCT---------------------------

upper sequence: Vv19s0014g00180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G38510.1 (Glycine max), 3'ss of exon 3
gtaagattaactgtgtcctttcccagttttctccatgtacacatcccatataactaagtttctcacaattgcttgccatttgtacagCTGCTGCAGCTTCTCTCTGTGTTCAAGTGAAGGGGGCCATTCCAAGCATGCCTGACAGACGGTCAGTTTTGGATCTTCTACAGACCTGTTGA--------
      |  |  |||   |    |  |||| ||  | || |  |  |   |    ||  |  ||  || | | |     |   |||||||||||||||| ||| ||||||||||||||||| |||  ||| ||||||||||| ||    || ||||||||||||||  |       |||        
---gtgtgtatggtggaatgcaactcttttttctttctagaattttctctttggaaaaatgttcctaactacgttgttctgcaacagCTGCTGCAGCTTGTCTTTGTGTTCAAGTGAAGGGAGCCTCTCCCAGCATGCCTGATAGGAAATCTGTTTTGGATCTTCTTAATTGTCAATGAGAATACTC

upper sequence: Vv19s0014g00180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G33840.1 (Glycine max), 3'ss of exon 3
---------gtaagattaactgtgtcct-ttcccagttttctccatgtacacatcccatataactaagtttctcacaattgcttgccatttgtacagCTGCTGCAGCTTCTCTCTGTGTTCAAGTGAAGGGGGCCATTCCAAGCATGCCTGACAGACGGTCAGTTTTGGATCTTCTACAGACCTGTTGA--------
         | |  || || |  ||  | ||   ||  || ||  | |  | ||     | || |  || ||| || | |   | |       ||||||||||| |||| ||| ||||||||||||||||| |||  ||| ||||||||||| ||    || ||||||||||||||          |||        
gtgtgtatggcagaatgaaattcgttttctttatagagttttctctttggaaatt--ggaaaatt--gtgtctgactactatgttctgca---acagCTGCTGCGGCTTGTCTTTGTGTTCAAGTGAAGGGAGCCTCTCCTAGCATGCCTGATAGGAAATCTGTTTTGGATCTTCTTATTTGTCAATGAGAATACTC

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|122689106|gb|EC932578.1|EC932578
EST:     TGTGGCTTTTGTGGAGGGCAGGTCTAAAAAGGAATGCTTGAGGTTTGCTG                         CTGCTGCAGCTTCTCTCTGTGTTCAAGTGAAGGGGGCCATTCCAAGCATGC
genomic: TGTGGCTTTTGTGGAGGGCAGGTCTAAAAAGGAATGCTTGAGGTTTGCTGgtaagattaa ... atttgtacagCTGCTGCAGCTTCTCTCTGTGTTCAAGTGAAGGGGGCCATTCCAAGCATGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatgtacacatcccatataactaagtttctcacaattgcttgccatttgtacagCTGCTGCAGCTTCTCTCTGTGTTCAAGTGAAGGGGGCCATTCCAAGCATGCCTGACAGACGGTCAGTTTTGGATCTTCTACAGACCTGTTGA
                           ttctcac  putative branch site (score: 2)
               atataactaagttt  TA-rich tract