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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaaattaatgatcacatatatcattctctgctttaatcacagagtaatctgagccatgtcaaaccattggattactaactgggaagctccttgtgtagGCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCACGCGT

Basic information

species Vitis vinifera
transcript Vv06s0004g01310.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g23810.2 (Oryza sativa), 3'ss of exon 3
gtaagtaaattaatgatcacatatatcattctctgctttaatcacagagtaatctgagccatgtcaaaccattggattactaactgggaagctc--cttgtgtagGCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCACGCGT
             | |    ||  | |  |  | |  || |  |  ||  | | |      | ||       |   | ||| | |||  || ||  | ||   ||||| | ||||| ||||| || |||||| ||||||| |||||||||||||||||   
------------gtaagtggatccaactcttgcagtgttcaatagggatcattttt--ttttttcctctttgtcattcacttaatggagagttctacctgcacagGCACTAAACATATTTGAGACAAGCCTAAGGCGTGGAAAGTTTGATGAATCACGAAA

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G10770.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------------gtaagtaaattaatgatcacatatatcattctctgctttaatcacaga-gtaatctgagccatgtcaaaccattggattactaactgggaagctccttgtgtagGCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCACGCGT
                                                                  |  ||    | |   |   | | | ||    |  | |  |   || | ||  ||    || | |      ||    |||||||||| ||| ||  || | |||||  |||| ||||||||  |||||||||||||||| |||||||| |||||||||||
gtaagttatttgtttattttggataaaaaatgggtacctatcagttgatatacaaattcacgaggttctgtctgctgacttttgga-acaacacctcccccctccagtgcatatgttttccagtccttttacggtgatacatttactaactgtgaa-ctatttctatagGCTCTGAATATTTTTGAGTCCAGCCTACGGCGTGGAAAGTTTGACGAATCACGCGT
















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|351029554|gb|FQ427394.1|FQ427394
EST:     AATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCACATGGGTTCCT                         GCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCA
genomic: AATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCACATGGGTTCCTgtaagtaaat ... ccttgtgtagGCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCA
EST: gi|349827600|gb|FQ422468.1|FQ422468
EST:     AATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCACATGGGTTCCT                         GCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCA
genomic: AATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCACATGGGTTCCTgtaagtaaat ... ccttgtgtagGCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCA
EST: gi|351014663|gb|FQ437665.1|FQ437665
EST:     AATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCACATGGGTTCCT                         GCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCA
genomic: AATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCACATGGGTTCCTgtaagtaaat ... ccttgtgtagGCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCA
EST: gi|349828693|gb|FQ418428.1|FQ418428
EST:     AATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCACATGGGTTCCT                         GCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCA
genomic: AATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCACATGGGTTCCTgtaagtaaat ... ccttgtgtagGCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCA
EST: gi|351043798|gb|FQ431350.1|FQ431350
EST:     AATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCACATGGGTTCCT                         GCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCA
genomic: AATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCACATGGGTTCCTgtaagtaaat ... ccttgtgtagGCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaatctgagccatgtcaaaccattggattactaactgggaagctccttgtgtagGCATTGAACATTTTTGAAACCAGCCTACGGCGTGGGAAGTTTGATGAATCACGCGT
                             tactaac  putative branch site (score: 0)
                                           ctccttgt  putative PPT
                           attactaa  TA-rich tract