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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccatcaagacatgcacgtgtcctataactatgattattccattctggacttttagctcatgtctatatgacctgtccttcaaatggcacagtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag

Basic information

species Vitis vinifera
transcript Vv14s0068g01300.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: LOC_Os01g70360.1 (Oryza sativa), 5'ss of exon 10
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccat--caag-acat-gcacgtgtcctataactatgattattccattctggacttttagctcatgtcta-tatgacctgtccttcaaatgg--cacagtttattctcatttca-tggctttttatcaaagtcaatggtgctgttacag----------------------------------------------
 |||||||||||||| ||||||||||| || || |||||  | ||| | || |||||||  ||||| ||||| |||||  |||||||||| |||||||||||||||   |  ||||  ||   ||  | |  || ||   |||| |  | ||  ||  | |||||   || |||| |   |  |   ||  |||| |  || |||||  |   |||| | |  |    | | |   |   | ||| | ||| |                                               
CTTTGAGGTTCTTGGAGATAATGACTCACCTGTCATGCCTTTCATGGTCTACAATCCTGCTAAAATGCCTGCATTCTCAAGAGAGTGCCTGAAGCAAAATgtgagtttttttcaagtgcaccacaaatctattaaaaacctgataaaacaatcttgtccgtttagtaaatctctaatgcaaatttgtctcaaaatagtccaaagttttgtactatttgagttacaccctgtaactcttttttgtgttattaaaaaaaagttttgcagttttaactaatgtggcatgttccatacttttag

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: LOC_Os11g31640.1 (Oryza sativa), 5'ss of exon 10
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtc-catcaagacatgcacgtgtcctataactatgattattccattctggacttttagctcatgtctatatgacctgtccttcaaatggcacagtttattctcatttca-tggctttttatcaaagtcaatggtgctgttacag
|||||||||||| || || |||||||||||||| |||||||||||||| || ||||| | ||||||||| || || ||  | |||||||| |  ||||| || |||      |    ||||   |   ||  |   ||| | |    ||  |||  |||| ||   | | |    |  |  |    |  ||  | |     | |    |  || |||| ||| |                        
TTTTGAGGTTCTCGGAGACAATGACTCTCCAGTTATGCCAATAATGCTCTACAATCCAGCCAAAATTCCAGCTTTTTCCAGGGAGTGCCTTAGACAAAAGgttagtaatggtatagaatgctatttatcttcagaaatggt-acagaataatgg--tttttgccagttttttgtcgttccctagcccctattac-cgtgcgactgatgtggcactggcatttcag-----------------------

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G010202_T02 (Zea mays), 5'ss of exon 9
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccatcaagacatgcacgtgtcctataactatgattattccattctggacttttagctcatgtctatat--gacctgtccttcaaatggcacagtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag
||||||||||||||| |||||||| || || || ||||| || |||||||| |||||||  ||||||||||| |||||  | |||||||| | ||||  ||||||| | |||    |  |   |||  | |  |||  || |      |     || |||||    || | | |   |   || | |||  | | | |||| |  || || | ||  || ||   ||                     
TTTTGAGGTTCTTGGAGATAATGATTCACCTGTCATGCCTATCATGCTTTACAATCCTGCTAAAATTCCTGCATTCTCAAGGGAGTGCCTGAGGCAAGCTgtgagttc-tcatacaaaccgtctgttatgtgcctagcat-acagtgcttacatctcttagcgagagtttgtctcaaaaaagttcctcattttgta-agttca--ctaatatgat--ctattccacag--------------------

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G137556_T01 (Zea mays), 5'ss of exon 6
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccatcaagacatgcacgtgtcctataactatgattattccattctggacttttagctcatgtctatatgacctgtccttcaaatggcacagtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag
||||||||||||||| || ||||||||||| || ||||| |||||||| || ||||| |  || |||||||| |||||  | |||||||| |  ||||| || |||  |  |     ||   |  |  | | |  ||    ||  || | |||  |||| |        ||||   | | |  || |||    ||  ||| ||      |  | |                               
TTTTGAGGTTCTTGGTGACAATGACTCTCCTGTCATGCCCATAATGCTCTACAATCCGGCTAAGATTCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgttagt--agtagagtttgtcagaatattctgaagatccaaatagcactatgg--ttttgg--------tata---ctttttttttaaaaaatac--tttgtttgagaattgtagtg-----------------------------

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G157249_T01 (Zea mays), 5'ss of exon 3
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgt--------gagtccatcaagacatgcacgtgtcctata----actatgattattccattctggacttttagctcatgtcta---tatgacctgtccttcaaatggcaca----gtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag-----------------------------------
||||||||||||||| || ||||||||||| || ||||| |||||||| || ||||| |  || |||||||| |||||  | |||||||| |  ||||| ||        |||| | |||  | || |    |  | | |    |||||| || |   || ||    | |||    ||   |    |  ||  |||  | | ||| |||       | || ||    | |||  || |||           |   | | || |                                     
TTTTGAGGTTCTTGGTGACAATGACTCTCCTGTCATGCCCATAATGCTCTACAATCCGGCTAAGATTCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgttagtagtagagttcgtcagaatattctgaagatccaaatagcactatgcttttggtatacttttttcttaaaaaatactttgtttgagaattgtggtgctaatagcaatctgcatgtagtccatatccatcactatttgcacccactggtttcgttcttcctatctgtcatggtacttataagatacttatctttcag

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G067257_T01 (Zea mays), 5'ss of exon 11
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccatcaagacatgcacgtgtcctataactatgattattccattctggacttttagctcatgtctatatgacctgtccttcaaatggcacagtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag
||||||||||||||| || ||||||||||| || ||||| |||||||| || ||||| |  || |||||||| |||||  | |||||||| |  ||||| || |||  |  |     ||   |  |  | | |  ||    ||  || | ||  ||||| |        ||||   | | |  || |||    | | ||| ||      |  |||                               
TTTTGAGGTTCTTGGTGACAATGACTCTCCTGTCATGCCCATAATGCTCTACAATCCGGCTAAGATTCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgttagt--agtagagtttgtcaggatattctgaagatccaaatagcactatg--cttttgg--------tata---cttttttttaaaaaaaaatactttgtttgagaattgtgg-------------------------------

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G055854_T01 (Zea mays), 5'ss of exon 8
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccatcaagacatgcacgtgtcctataactatgattattccattctggacttttagctcatgtctatatgacctgtccttcaaatggcacagtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag
||||||||||||||| || ||||||||||| || ||||| |||||||| || ||||| |  || |||||||| |||||  | |||||||| |  ||||| || |||  |  |     ||   |  |  | | |  ||    ||  || | ||  ||||| |   |  | || |  |    | |||    ||  |    |  | || ||                                      
TTTTGAGGTTCTTGGTGACAATGACTCTCCTGTCATGCCCATAATGCTCTACAATCCAGCTAAGATTCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgttagt--agtagagtttgtcagaatattctgaagatccaaatagcactatg--cttttggtatacttttaaaaaa---atactttgtttgagaattgtggtgctaatag------------------------------------

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G357734_T03 (Zea mays), 5'ss of exon 15
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgt--------gagtccatcaagacatgcacgtgtcctata----actatgattattccattctggactttt---agctcatgtctatatgacctgtccttcaaatggcaca----gtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag-----------------------------------
||||||||||||||| || ||||||||||| || ||||| |||||||| || ||||| |  || |||||||| |||||  | |||||||| |  ||||| ||        ||||   ||| || || |    |  | | |    |||||| || |   || ||    ||||   |  |  | | | |  ||  |||  | | ||| |||       | || ||   || |||  || |||           |  || | || |                                     
TTTTGAGGTTCTTGGTGACAATGACTCTCCTGTCATGCCCATAATGCTCTACAATCCGGCTAAGATTCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgttagtagtagagtttgtcaggatattctgaagatccaaatagcactatgcttttggtatactttttttttttaaaatactttgtttgagaattgtggtgctaatagcaatctgcatgtagtccatttccatcactatttgcacccactggttttgttcttcctatctgtcatggtacttataagatacttatctttcag

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G370377_T01 (Zea mays), 5'ss of exon 12
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccatcaagacatgcacgtgtcctataactatgattattccattctggacttttagctcatgtctatatgacctgtccttcaaatggcacagtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag
||||||||||||||| || ||||||||||| || ||||| |||||||| || ||||| |  || |||||||| |||||  | |||||||| |  ||||| || |||  |  |     ||   |  |  | | |  ||    ||  || | ||  ||||| |   |  | || |  |  |   |||    ||  |    |  | || ||                                      
TTTTGAGGTTCTTGGTGACAATGACTCTCCTGTCATGCCCATAATGCTCTACAATCCGGCTAAGATTCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgttagt--agtagagtttgtcagaatattctgaagatccaaatagcactatg--cttttggtatacttttaaaaaaaata--ctttgtttgagaattgtggtgctaatag------------------------------------

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G152888_T01 (Zea mays), 5'ss of exon 10
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccatcaagacatgcacgtgtcctataactatgattattccattctggacttttagctcatgtctatatgacctgtccttcaaatggcacagtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag
||||||||||||||| || ||||||||||| || ||||| |||||||| || ||||| |  || |||||||| |||||  | |||||||| |  ||||| || |||  |  |     ||   |  |  | | |  ||    ||  || | ||  ||||| |          |||    | |  || |||    ||  ||| ||      |  |||                               
TTTTGAGGTTCTTGGTGACAATGACTCTCCTGTCATGCCCATAATGCTCTACAATCCGGCTAAGATTCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgttagt--agtagagtttgtcagaatattctgaagatccaaatagcactatg--cttttgg----------tatactttttttttaaaaaaatac--tttgtttgagaattgtggt------------------------------

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G142030_T01 (Zea mays), 5'ss of exon 10
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgt--------gagtccatcaagacatgcacgtgtcctata----actatgattattccattctggacttttagctcatgtctatatgacctgtccttcaaatggcaca---gtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag-----------------------------------
||||||||||||||| || ||||| ||||| || ||||| ||||||||||| ||||| |  || || ||||| |||||  | |||||||| |  ||||| ||        ||||   |||    || |    |  | | |    |||||| || |   |   |   ||||||    ||  || |  ||  | |  | | ||| |||      | || ||    | |||  || |||       ||  |  || | || |                                     
TTTTGAGGTTCTTGGCGACAATGATTCTCCTGTTATGCCCATAATGCTTTACAATCCGGCTAAGATCCCTGCATTCTCTAGGGAGTGCCTTAGACAAAAGgtcagtcatagagtttgtcagactattctgaagatccagatagcactatgcttttggtacagttttcttttaaaatattactttgagaagtctggtgctaatagcagttgcatgtagtccttatccatcactatttgcacccatcggttttgttcttcctctttgtcatgcggctaataagacacttatatttcag

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G030862_T01 (Zea mays), 5'ss of exon 9
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccatcaagacatgcacgtgtcctataactatgattattccattctggacttttagctcatgtctatatgacctgtccttcaaatggcacagtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag
 |||||||||||||| || || |||||||| || ||||| |||||||| || ||||| | ||| |||||||| || || || |||||| | |  ||||| || | |    | |||  |   ||   |  |  ||| |||  || | | |    | |   ||    | | | |   | |||                                                                  
CTTTGAGGTTCTTGGTGACAACGACTCTCCTGTCATGCCCATAATGCTCTACAATCCGGCCAAGATTCCTGCGTTTTCTCGGGAGTGCTTTAGACAAAAGgttattagtgctagagtttgtcga--cgaaacactctgaagatccgaatagcaattgacagaattt-tttgtgctagctgcag---------------------------------------------------------------

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 10
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccatcaagacatgcacgtgtcctataactatgat-tattccattctggacttttagctcat--gtctatatgacctgtccttcaaatggcacagtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag
 ||||||||||||||||||||||| |||||||| |||||||| |||||||| || || | |||||| |||||||||||  |||||||||||||||| ||||| ||  ||   |  ||      ||  |  |  | ||    ||   |||     |   | |  |  |   || || |   |  |  || || |                                                        
ATTTGAGGTTCTTGGGGATAATGATTCTCCAGTAATGCCAATCATGCTTTACAACCCCGCCAAAATCCCTGCCTTCTCAAGAGAGTGCCTCAAGCAGAATgtaagatcaaacatccaactttatgctccttgtcgataccctacatcatgtataagaatgaaattgttaatcaatgtttaccatttttgaattcag-----------------------------------------------------

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA02G07250.1 (Glycine max), 5'ss of exon 10
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccatcaagacatgcacgtgtcctataactatgattattccattctggacttttagctcatgtctatatga-cctgtccttcaaatggcacagtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag
 ||||||||||||||||||||||| |||||||| |||||||| |||||||| || || | |||||| |||||||| ||  |||||||||||||||| ||||||||  ||||||          | |||   ||||||   |  ||| |  ||      ||  |||| |    ||||   |||   | ||     ||| ||| ||   ||||||                                  
ATTTGAGGTTCTTGGGGATAATGATTCTCCAGTAATGCCAATCATGCTTTACAACCCGGCCAAAATCCCTGCCTTTTCAAGAGAGTGCCTCAAGCAGAATgtgagaacatcaaa---------tatcc---aactatctatgctccttgttgataccctacatcatataagaatgaatttgttaattaatgtttacaatttttt---atttcag---------------------------------

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: AT3G48780.1 (Arabidopsis thaliana), 5'ss of exon 10
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccatcaagacatgcacgtgtcctataactatgattattccattctggacttttagctcatgtctatatgacctgtccttcaaatggcacagtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag
 ||||| |||||||| || ||||| || ||||| ||||||||||||||||| ||||| |  |||||||| || |||||  | || ||  |     |||| || |||   ||  |   | |         | || |||  || ||   |||   ||      ||||  ||         ||| |  |  ||     | ||| |   ||                                       
GTTTGAAGTTCTTGGAGACAATGATTCACCAGTCATGCCAATAATGCTTTACAATCCAGCAAAAATTCCAGCATTCTCAAGGGAATGTTTGCGAGAAAACgttagtttctcttgcttttctta------aaaaatatttttttttgcttccacacaagagactcacctcc------tatgttcaacggataatgaaatttgtgaacag--------------------------------------

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|352778117|gb|FQ467170.1|FQ467170
EST:     ATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAAT                         GTGGCCGTTGTAATGTCTGCTTTTCCAGCCACCCCACTACTGTTAGCAAGG
genomic: ATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccat ... gctgttacagGTGGCCGTTGTAATGTCTGCTTTTCCAGCCACCCCACTACTGTTAGCAAGG
EST: gi|329112275|gb|JG391743.1|JG391743
EST:     ATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAAT                         GTGGCCGTTGTAATGTCTGCTTTTCCAGCCACCCCACTACTGTTAGCAAGG
genomic: ATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccat ... gctgttacagGTGGCCGTTGTAATGTCTGCTTTTCCAGCCACCCCACTACTGTTAGCAAGG
EST: gi|352789616|gb|FQ476214.1|FQ476214
EST:     ATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAAT                         GTGGCCGTTGTAATGTCTGCTTTTCCAACCACCCCACTACTGTTAGCAAGG
genomic: ATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccat ... gctgttacagGTGGCCGTTGTAATGTCTGCTTTTCCAGCCACCCCACTACTGTTAGCAAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTGAGGTTCTTGGGGATAATGACTCTCCAGTGATGCCAATAATGCTTTATAATCCTGGCAAAATTCCTGCCTTCTCGCGAGAGTGCCTCAAGCAAAATgtgagtccatcaagacatgcacgtgtcctataactatgattattccattctggacttttagctcatgtctatatgacctgtccttcaaatggcacagtttattctcatttcatggctttttatcaaagtcaatggtgctgttacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA