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'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   		27  
 5'  3'   		28  
 5'  3'   		29  
 5'  3'   		30  
 5'  3'   		31  
 5'  3'   		32  
 5'  3'   		33  
 5'  3'   		34  
 5'  3'   		35  
 5'  3'   		36  
 5'  3'   		37  
 5'  3'   		38  
 5'  3'   		39  
 5'  3'   		40  
 5'  3'   
41  
 5'  3'   		42  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggaatacccatggagactagattgctcagactcgagattatttcttgtatggcttctggttcagcctctataggcttaaaattttcttcttggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCGGTTCGAACACTTGCTCGTGGGTATGAGATCATCATGGGCTTGCTTCTAT

Basic information

species Vitis vinifera
transcript Vv06s0004g01270.t01
intron # 41
splice site 3'
intron type U2

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|110720405|gb|EE096298.1|EE096298
EST:     CATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTATCTG                         AT-GCACGACCCTGCGAGCCTGTTGTTGAGCGA
genomic: CATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACT-TCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGA
EST: gi|110719044|gb|EE096573.1|EE096573
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCCGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110719280|gb|EE097073.1|EE097073
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110720700|gb|EE096852.1|EE096852
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110720848|gb|EE097127.1|EE097127
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110720658|gb|EE096775.1|EE096775
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110719534|gb|EE094756.1|EE094756
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110719236|gb|EE096981.1|EE096981
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110720627|gb|EE096716.1|EE096716
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110714649|gb|EE091794.1|EE091794
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110719285|gb|EE097086.1|EE097086
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110719070|gb|EE096623.1|EE096623
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110720759|gb|EE096960.1|EE096960
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110700656|gb|EE077502.1|EE077502
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTTGTTGA-CGAGCTGGGTTCTGGGCATC
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTT-GTTGAGCGAGCTGGGTTCTGGGCATC
EST: gi|110719077|gb|EE096638.1|EE096638
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|71877602|gb|DT026657.1|DT026657
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110719312|gb|EE097145.1|EE097145
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGGGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110718917|gb|EE096294.1|EE096294
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCCCGAGCCTGCAAGCCTGTTGTTGAACGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110719169|gb|EE096834.1|EE096834
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|71879777|gb|DT028832.1|DT028832
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|30299763|gb|CB976557.1|CB976557
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110725103|gb|EE101525.1|EE101525
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110719337|gb|EE097194.1|EE097194
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110719115|gb|EE096724.1|EE096724
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110720876|gb|EE097182.1|EE097182
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110720543|gb|EE096555.1|EE096555
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110720651|gb|EE096761.1|EE096761
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
EST: gi|110718751|gb|EE095944.1|EE095944
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAACCTGCAAACCTGTTGTTGAACGAGCAGGGTTC
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTC
EST: gi|110720554|gb|EE096580.1|EE096580
EST:     TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTG                         ATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG
genomic: TCATAGTCTGCATTCTTGCGTTCATGCCGACTGGTTGGGGATTACTTCTGgtcagtaatt ... tggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtatggcttctggttcagcctctataggcttaaaattttcttcttggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCGGTTCGAACACTTGCTCGTGGGTATGAGATCATCATGGGCTTGCTTCTAT
                                    ttttcttcttggtttt  CT-rich tract
                              ttaaaattttcttctt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggaatacccatggagactagattgctcagactcgagattatttcttgtatggcttctggttcagcctctataggcttaaaattttcttcttggttttcagATTGCACAAGCCTGCAAGCCTGTTGTTGAGCGAGCTGGGTTCTGGGCATCGGTTCGAACACTTGCTCGTGGGTATGAGATCATCATGGGCTTGCTTCTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
ggaatac
- - - -ccatgga
- - - - - - - - - - - - - - - - - - - - - - -tgtatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - cttctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagcctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttaaaa