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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagaataagtctattttctgatcattttcttctctttttgtttcattcctagtaaaattgggtttttttttttggcagACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCACTCATGATTGGTTACTTTTCTCTATCTGTCCCATCAGGATTATCAATTT

Basic information

species Vitis vinifera
transcript Vv06s0004g04460.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g04460.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g05800.1 (Oryza sativa), 3'ss of exon 7
-----------------gtaaagaataagtctattttctgatcattttcttctctttttgtttcattcctagtaaaattgggtttttttttttggcagACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCACTCATGATTGGTTACTTTTCTCTATCTGTCCCATCAGGATTATCAATTT
                 |     ||| | | |||  ||||     || |  || |    | |             |||| | |  |||||||  |||||||||||||||||| || ||||| ||||| |||||||| || ||||||||| | ||||| || |  || ||| | || || || ||||| || || ||||
gtgagcagacgagcggtgctctaaattactatatcatctgtcatattgccactatacaagctatgagtggctggcaatttgatcctttttttctgcagACTGATGATCCATCGCAGAAGAACACACTGCTTGTTTTGAAATTTCTTCCATTTATGATAGGGTGGTTCTCTTTGTCAGTGCCGTCAGGGTTGTCCATTT

upper sequence: Vv06s0004g04460.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G14960.1 (Glycine max), 3'ss of exon 7
gtaaagaataagtctattttctgatcattttcttctctttttgtttcattcctagtaaaattgggtttttttttttggcagACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCACTCATGATTGGTTACTTTTCTCTATCTGTCCCATCAGGATTATCAATTT---
      || |  ||  || |||  |  || | ||   ||||||| |  | |   |      |   |   || ||||| ||||| |||   || ||||||||||||  ||||||| |||| ||||||||||||||||||||||| ||||| || |||||||||||||||||| || ||||||   
---gtaaacacatcagttctcttctgtttctgtttcttttttgtgtt-tacaaggctggcctaaatgacttcttttgacagACAGAT---CCTTCTCAAAAGAATCAACTTCTTATTTTAAAGTTTCTTCCACTCATGATTGGCTACTTCTCACTATCTGTCCCATCAGGACTAACAATTTACT

upper sequence: Vv06s0004g04460.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G06920.1 (Glycine max), 3'ss of exon 7
gtaaagaataagtctattttctgatcattttcttctctttttgtttcattcctagtaaaattgggtttttttttttggcagACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCACTCATGATTGGTTACTTTTCTCTATCTGTCCCATCAGGATTATCAATTT---
      || |  ||  || ||   ||  |||||| |  |||| |||   |  ||  |||  |   |   || ||||| ||||| |||   || ||||||||||||  ||||||| |||| ||||||||||||||||||||||| ||||| ||  ||||||||||||| ||| || ||||||   
---gtaaacacatcagttctcc--tctgtttctttttctttt-ttttggtgttaacaaa-ctaaatgacttcttttgacagACAGAT---CCTTCTCAAAAGAATCAACTTCTTATTTTAAAGTTTCTTCCACTCATGATTGGCTACTTCTCATTATCTGTCCCATCTGGACTAACAATTTACT

upper sequence: Vv06s0004g04460.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G28800.4 (Arabidopsis thaliana), 3'ss of exon 6
gtaaagaataagtcta---ttttctgatcattttcttctctt------tttgtttcattcctagtaaaattgggttt--ttttttttggcagACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCACTCATGATTGGTTACTTTTCTCTATCTGTCCCATCAGGATTATCAATTT
|| |  |||||    |   || | | ||  ||    |  |||      |||| |    |  |  | |||  |  |||  ||| ||||| ||||||||||||||  | || |||||||| |||||||||||||||||||||||||||||||| ||||||||| |  | ||||||||||||||| |||| ||||
gtgagaaataaacacaagtttcttttatttttcctgttacttaaacaatttgatatgattgttctgaaaccgaatttaatttcttttgtcagACTGATGATCCTGCACAGAAGAATACGCTTCTTGTTTTCAAGTTTCTTCCACTCATGATCGGTTACTTTGCATTGTCTGTCCCATCAGGACTATCTATTT

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|349809519|gb|FQ414409.1|FQ414409
EST:     TCCTTGTCATTTCTCAGTATGTTTCAATGGAGCTGATGAAGCCACCTCAG                         ACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCA
genomic: TCCTTGTCATTTCTCAGTATGTTTCAATGGAGCTGATGAAGCCACCTCAGgtaaagaata ... tttttggcagACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCA
EST: gi|18458571|gb|BM436849.1|BM436849
EST:     TCCTTGTCATTTCTCAGTATGTTTCAATGGAGCTGATGAAGCCACCTCAG                         ACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCA
genomic: TCCTTGTCATTTCTCAGTATGTTTCAATGGAGCTGATGAAGCCACCTCAGgtaaagaata ... tttttggcagACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCA
EST: gi|30327231|gb|CD010493.1|CD010493
EST:     TCCTTGTCATTTCTCAGTATGTTTCAATGGAGCTGATGAAGCCACCTCAG                         ACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCA
genomic: TCCTTGTCATTTCTCAGTATGTTTCAATGGAGCTGATGAAGCCACCTCAGgtaaagaata ... tttttggcagACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCA
EST: gi|32269560|gb|CD718719.1|CD718719
EST:     TCCTTGTCATTTCTCAGTATGTTTCAATGGAGCTGATGAAGCCACCTCAG                         ACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCA
genomic: TCCTTGTCATTTCTCAGTATGTTTCAATGGAGCTGATGAAGCCACCTCAGgtaaagaata ... tttttggcagACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCA
EST: gi|352799049|gb|FQ480898.1|FQ480898
EST:     TCCTTGTCATTTCTCAGTATGTTTCAATGGAGCTGATGAAGCCACCTCAG                         ACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCA
genomic: TCCTTGTCATTTCTCAGTATGTTTCAATGGAGCTGATGAAGCCACCTCAGgtaaagaata ... tttttggcagACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCA
EST: gi|33402160|gb|CF207787.1|CF207787
EST:     TCCTTGTCATTTCTCAGTATGTTTCAATGGAGCTGATGAAGCCACCTCAG                         ACTGATGATCCATCTCAAAAGAATACACTTTTTGTTTTCAAGTTTCTTCCA
genomic: TCCTTGTCATTTCTCAGTATGTTTCAATGGAGCTGATGAAGCCACCTCAGgtaaagaata ... tttttggcagACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttcttctctttttgtttcattcctagtaaaattgggtttttttttttggcagACTGATGATCCATCTCAAAAGAATACACTTCTTGTTTTCAAGTTTCTTCCACTCATGATTGGTTACTTTTCTCTATCTGTCCCATCAGGATTATCAATTT
                                       tttttttttttggc  CT-rich tract
                             taaaattgggtttttt  TA-rich tract