Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCAAGACTTTTGGCGAATCTTTAGATACTACCAAAACCATCATTTGGAATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcataatatacacatacatgaaatattctaatgtcaactacattgtttgatgctcttttacctgcaatgcttgaatttaccaaaccaaaaacctt...

Basic information

species Vitis vinifera
transcript Vv19s0085g00370.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0085g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os02g07260.1 (Oryza sativa), 5'ss of exon 6
TATCAAGACTTTTGGCGAATCTTTAGATACTACCAAAACCATCATTTGGAATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcataatatacacatacatgaaatattctaatgtcaactacattgtttgatgctcttttacctgcaatgcttgaatttaccaaaccaaaaacctt
 ||||||||||   ||||| | || || ||   ||| || ||||||||||| ||||||||||| || |||||||| || |||||||||   || || || || | | | |||  || || |   |       || || ||  || |||| | |     | || |  | || |  | |     |     | ||        
CATCAAGACTTCCAGCGAAGCATTGGACACCTGCAACACTATCATTTGGAACGGACCTATGGGAGTCTTTGAGTTTGAGAAGTTTGCAGCAGGCACTGATgtta-gtacaattgactcacatccg-------ctgatctc--ctgcattttctttcttttttctgtc-gctaaacattctcgtctttcatcag-------

upper sequence: Vv19s0085g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os06g45710.1 (Oryza sativa), 5'ss of exon 6
TATCAAGACTTTTGGCGAATCTTTAGATACTACCAAAACCATCATTTGGAATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcataatatacacatacatgaaatattctaatgtcaactacattgtttgatgctcttttacctgcaatgcttgaatttaccaaaccaaaaacctt
 |||||||||||  | ||| |||| ||||||||||| ||  |||| |||||||| |||||||| ||||| ||||| || || || ||    || || || || |    || | |      |||    || |   |        |    ||||||| |||     |  ||   |   | |||| |                
CATCAAGACTTTCAGTGAAACTTTGGATACTACCAAGACTGTCATCTGGAATGGGCCTATGGGAGTGTTCGAGTTTGAGAAATTCGCTGCTGGCACTGATgtga---gtactgtttttgaaca---gatttatcagcacaggtttttgtgtttgaagctaa---atgtgttcttaatcaattcag---------------

upper sequence: Vv19s0085g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA08G17600.1 (Glycine max), 5'ss of exon 6
TATCAAGACTTTTGGCGAATCTTTAGATACTACCAAAACCATCATTTGGAATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcataatatacacatacatgaaatattctaatgtcaactacattgtttgatgctcttttacctgcaatgcttga--atttaccaaaccaaaaacctt--
 |||||||| ||||| ||| | || ||||  ||| | ||| |||||||||||||||| |||||||| |||||||| |||||||||||    ||||||||||||| | || ||| | | |   || ||  | |  |   ||  ||| ||| |   |     || ||   | | |  ||||  |  |   |||     | |  |  
CATCAAGACATTTGGTGAAGCATTGGATAAGACCCAGACCGTCATTTGGAATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaa-gaatgataaaaaaaataataaatcacttca---tctgctatattttgaaagatatttgtaaaagtactctttgagaagctcttaaatgtgcacctataa

upper sequence: Vv19s0085g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA15G41550.1 (Glycine max), 5'ss of exon 6
TATCAAGACTTTTGGCGAATCTTTAGATACTACCAAAACCATCATTTGGAATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcataatatacacatacatgaaatattctaatgtcaactacattgtttgatgctcttttacc-tgcaatgcttgaatttaccaaaccaaaaacctt---
 |||||||| ||||| ||| | || ||||| ||  | ||||| |||||||||||||| |||||||| |||||||| |||||||||||    ||||||||||||| | |||||| |   ||| || |   |||      |     | ||| |   |  || | | ||  |  | | |||  | |    | |    |  | |    
CATCAAGACATTTGGTGAAGCATTGGATACGACTCAGACCATTATTTGGAATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaa-gaataataaaataataaatcatccatt---gcttttgaaagattttgcaagactgtctcactgtaaagtacttccagtccaaatattggattcttcttt

upper sequence: Vv19s0085g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT1G79550.1 (Arabidopsis thaliana), 5'ss of exon 5
TATCAAGACTTTTGGCGAATCTTTAGATACTACCAAAACCATCATTTGGAATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcataatatacacatacatg-aaatattctaatgtcaactacattgtttgatgctcttttacctgcaa--tgcttg--aatttaccaaaccaaaaacctt----------------------------------------------------------
 |||||||| ||  ||||| || | || || |||||||||||||| |||||||| || |||||||||||||| ||||||||||||||    ||||| ||||||      | || ||||||| |   | |  || || | |||  |   |||| | |    | |||  || |||  || |||  |||   |       || |  ||                                                          
CATCAAGACATTCAGCGAAGCTCTGGACACAACCAAAACCATCATCTGGAATGGTCCCATGGGTGTGTTTGAATTCGATAAGTTTGCTGCTGGAACTGAGgtatgagcaactaaacacatataaacacaagttttagtctcactt---ttgtctaa-atccatttgtcttcaacatgtttgttaatcatctgtcttcaacatgtttgttaatcggagaaacccaacttaactaacccaatctcttgtcttgtttcaccatcag

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|349828157|gb|FQ415485.1|FQ415485
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|349824307|gb|FQ417718.1|FQ417718
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71883278|gb|DT032333.1|DT032333
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|30125952|gb|CB911291.1|CB911291
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|351053335|gb|FQ459203.1|FQ459203
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71888929|gb|DT037984.1|DT037984
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71881435|gb|DT030490.1|DT030490
EST:     ATGGACCTATGGGTGTGTT-GAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71881347|gb|DT030402.1|DT030402
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71883560|gb|DT032615.1|DT032615
EST:     ATGGACCTATGGGTGTGTT-GAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71885690|gb|DT034745.1|DT034745
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACA
EST: gi|349828158|gb|FQ415486.1|FQ415486
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|77580822|gb|DV219326.1|DV219326
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|30303547|gb|CB980341.1|CB980341
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71887650|gb|DT036705.1|DT036705
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71877456|gb|DT026511.1|DT026511
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|110700457|gb|EE078517.1|EE078517
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71890004|gb|DT039059.1|DT039059
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71884116|gb|DT033171.1|DT033171
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|28962808|gb|CB341841.1|CB341841
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|351012744|gb|FQ430307.1|FQ430307
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAATGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|110731726|gb|EE106391.1|EE106391
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAATTTGCATTGGGGACAGAG                         GCAATAGCCAAGAAGTGGGCAAACCTAATTGAGAGGGGGGTGACA-CTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|30254164|gb|CB971179.1|CB971179
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71888994|gb|DT038049.1|DT038049
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71876777|gb|DT025832.1|DT025832
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|22012404|gb|BQ797438.1|BQ797438
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|71867965|gb|DT017020.1|DT017020
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
EST: gi|351027624|gb|FQ446788.1|FQ446788
EST:     ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAG                         GCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA
genomic: ATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcata ... ccaactgcagGCAATAGCCAAGAAGTTGGCAGACCTAAGTGAGAAGGGGGTGACAACTATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATCAAGACTTTTGGCGAATCTTTAGATACTACCAAAACCATCATTTGGAATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcataatatacacatacatgaaatattctaatgtcaactacattgtttgatgctcttttacctgcaatgcttgaatttaccaaaccaaaaacctt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaaaaa