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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgtagatactttccttgtacccattttctgctgattaaaacacagataaattcatgtacactcacatataatatacatactatttgtgttttgtttttcttactgttctgcaccaatgtttggtcacagGAGTCCATGATTCATACTGGACACATGCATGTGATGTTGACGAAATGAACAGGATACTTAGAGAAAAGTTTGTTGAACTCTACGGGATGCCAATACTTGA

Basic information

species Vitis vinifera
transcript Vv01s0010g00690.t01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g00690.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: PP1S256_41V6.1 (Physcomitrella patens), 3'ss of exon 17
---------------------gttttgtagatactttccttgtacccattttctgctgattaaaa---cacagataaatt-----catgtacactcacatataatatacatactatttgtgttttgtttttcttactgttctgcac-----caatgtttg--gtcacagGAGTCCATGATTCATACTGGACACATGCATGTGATGTTGACGAAATGAACAGGATACTTAGAGAAAAGTTTGTTGAACTCTACGGGATGCCAATACTTGA
                     | ||  |    | | |  |  |   ||||   |    | ||       |  |||  |||     |||| |||  | | || |||     |  ||||   | |||  |    | ||     | ||         ||||||      |||| || |||||||||||||||||||||||| |||| || ||  ||||||||||  | ||  | || |||||||||||||||||| |    ||| |  | ||
gtacataattatgtatacatagcttgatgtgcattctattattctgcattcgatatgcagtaggtgcttatggatttattttcttcatgaacatcctcgta-aattcttttcttattacagcttttctccgttcacaagcttacatgtttttgttgtttgtaactgcagGTGTGCATGATTCATACTGGACACATGCAGGTGACGTAGAGCAAATGAACAGCCTGCTCCGTGAGAAGTTTGTTGAACTCTACAGTCAACCAGTTTTGGA
















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|27581209|gb|CB003904.1|CB003904
EST:     CATGATGATGACTGCTGTTGCTTGCCAAAAGGCANGCTTAAATTTTGCAG                         GAGTCCATGATTCATACTGGACACATGCATGTGAT
genomic: CATGATGATGACTGCTGTTGCTTGCCAAAAGGCAGGCTTAAATTTTGCAGgttttgtaga ... ttggtcacagGAGTCCATGATTCATACTGGACACATGCATGTGAT
EST: gi|27581087|gb|CB003782.1|CB003782
EST:     CATGATGATGACTGCTGTTGCTTGCCAAAAGGCAGGCTTAAATTTTGCAG                         GAGTCCATGATTCATACTGGACACATGCATGTGATGTTGACGAAATGAACA
genomic: CATGATGATGACTGCTGTTGCTTGCCAAAAGGCAGGCTTAAATTTTGCAGgttttgtaga ... ttggtcacagGAGTCCATGATTCATACTGGACACATGCATGTGATGTTGACGAAATGAACA
EST: gi|27579010|gb|CB001705.1|CB001705
EST:     ATGATGATGACTGCTGTTGCTTGCCAAAAGGCAGGCTNTAA-TTTTGCAG                         GAGTCCATGATTCATACTGGACACATGCATGTGATGTTGACGAAATGAACA
genomic: ATGATGATGACTGCTGTTGCTTGCCAAAAGGCAGGCT-TAAATTTTGCAGgttttgtaga ... ttggtcacagGAGTCCATGATTCATACTGGACACATGCATGTGATGTTGACGAAATGAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatactatttgtgttttgtttttcttactgttctgcaccaatgtttggtcacagGAGTCCATGATTCATACTGGACACATGCATGTGATGTTGACGAAATGAACAGGATACTTAGAGAAAAGTTTGTTGAACTCTACGGGATGCCAATACTTGA
                      ttcttac  putative branch site (score: 2)
              ttttgtttttctta  TA-rich tract