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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatataagccttggttatccattatttcattcttcatctatgtcatataattttcacttatttacttatattttatatatgattgggcttgatgactttactttcttttacttgttccatgcagCTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGTGTTTGTACTTATAATCCACTTCATCCCACAATATGGCCAGACCCATATAATGGTTTACATTGG

Basic information

species Vitis vinifera
transcript Vv12s0035g00720.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0035g00720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G28940.1 (Glycine max), 3'ss of exon 4
gtaatataagccttggttatccattatttcattcttcatctatgtcatataattttcacttatttacttatattttatatatgattgggcttgatgactttactttcttttacttgttcca-tgcagCTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGTGTTTGTACTTATAATCCACTTCATCCCACAATATGGCCAGACCCATATAATGGTTTACATTGG
                                     | | ||||    || ||   |  |   |   | || |  ||| || || |   || | ||||   |       || |  ||| | |||||| ||||||||||||||||| ||||| |||||||||   ||| | |||||  |||||||||| || |  ||||||||||| || ||||||||||| || ||
-----------------------------------gtagccatgttcc-tacttgatatatcactgtctttactcaatagat-atcgtatttaacgactaaccaagaacataatctttctactgcagCATTTCTCTTTTATGCAGCTTTGGTAATAACAGCTACTTTTATCCTTATCTTCCACTTCATTCCTCTCTATGGCCAGACACACATAATGGTTTATATCGG

upper sequence: Vv12s0035g00720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G00560.1 (Glycine max), 3'ss of exon 4
gtaatataagccttggttatccattatttcattcttcatctatgtcatataattttcacttatttacttatattttatatatgattgggcttgatgactttactttcttttacttgttccatgcagCTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGTGTTTGTACTTATAATCCACTTCATCCCACAATATGGCCAGACCCATATAATGGTTTACATTGG
                          |     | ||| |   ||  |||| | | ||  | ||  |    |||| |||  |  |     |   |  || | |  || |||           |||||| |||||||||||||||||  |||| |||||||||   ||| | |||||  |||||||||| || |  ||||||||||| || ||||||||||| |||||
-------------------------gtagtcatgttcctacttgatatatcagtgtctgtaatcaataggtattgtattgaacaactaacc-aacaacataatcttttttc----------tgcagCATTTCTCTTTTATGCAGCTATGGTTATAACAGCTACTTTTATCCTTATCTTCCACTTCATTCCTCTCTATGGCCAGACACACATAATGGTTTATATTGG
















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|161715837|gb|FC067434.1|FC067434
EST:     ACGTGAGATTCAATCTGTGATAGAAGTGTGGGATCTTGCTACAGAGCCAG                         CTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGTGTTTGTACTTATAA
genomic: ACGTGAGATTCAATCTGTGATAGAAGTGTGGGATCTTGCTACAGAGCCAGgtaatataag ... ttccatgcagCTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGTGTTTGTACTTATAA
EST: gi|27755040|gb|CB035795.1|CB035795
EST:     ACGTGAGATTCAATCTGTGATAGAAGTGTGGGATCTTGCTACAGAGCCAG                         CTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGTGTTTGTACTTATAA
genomic: ACGTGAGATTCAATCTGTGATAGAAGTGTGGGATCTTGCTACAGAGCCAGgtaatataag ... ttccatgcagCTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGTGTTTGTACTTATAA
EST: gi|161706210|gb|FC054968.1|FC054968
EST:     ACGTGAGATTCAATCTGTGATAGAAGTGTGGGATCTTGCTACAGAGCCAG                         CTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGT
genomic: ACGTGAGATTCAATCTGTGATAGAAGTGTGGGATCTTGCTACAGAGCCAGgtaatataag ... ttccatgcagCTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGT
EST: gi|161717532|gb|FC066885.1|FC066885
EST:     ACGTGAGATTCAATCTGTGATAGAAGTGTGGGATCTTGCTACAGAGCCAG                         CTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGTGTTTGTACTTATAA
genomic: ACGTGAGATTCAATCTGTGATAGAAGTGTGGGATCTTGCTACAGAGCCAGgtaatataag ... ttccatgcagCTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGTGTTTGTACTTATAA
EST: gi|110713706|gb|EE089862.1|EE089862
EST:     ACGTGAGATTCAATCTGTGATAGAAGTGTGGGATCTTGCTACAGAGCCAG                         CTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGTGTTTGTACTTATAA
genomic: ACGTGAGATTCAATCTGTGATAGAAGTGTGGGATCTTGCTACAGAGCCAGgtaatataag ... ttccatgcagCTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGTGTTTGTACTTATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttatatatgattgggcttgatgactttactttcttttacttgttccatgcagCTTTTCTCTTTTATGCAGCCTTGGTGATAACAGCTGTGTTTGTACTTATAATCCACTTCATCCCACAATATGGCCAGACCCATATAATGGTTTACATTGG
                 gcttgat  putative branch site (score: 5)
                          ctttactttcttttac  putative PPT
                           tttactttctttta  TA-rich tract