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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTGCTTTGGAAGACCAATATCAAGTGCTCCTGATGCTTGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttccctttttgcatcagatacttagccttgtcttataaggagtatttagttttctcttatttttggttgaagttagtttcttatctgtttattt...

Basic information

species Vitis vinifera
transcript Vv14s0068g01300.t01
intron # 3
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 3
lower sequence: LOC_Os11g31640.1 (Oryza sativa), 5'ss of exon 3
GACTGCTTTGGAAGACCAATATCAAGTGCTCCTGATGCTTGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttccctttttgcatcagatacttagccttgtcttataaggagtatttagttttctcttatttttggttgaagt-tagtt-tcttatctgtttattt
|| ||||| || || || ||| ||||||| || ||||||||||| |||||  | || ||  |||||||||||| |||||||||||| |||||||     ||| ||      | || | |  || |  |           || ||     |    |       | | ||  |||| | |||||||   ||| 
GATTGCTTCGGTAGGCCCATAGCAAGTGCACCAGATGCTTGGTTTGATGTTGTTGAGCGCTACTCCAATGACAGTAACAAGACATTAAAgtaagcacttcttcttcttattgtta-tcattctaggatagagcttgagcttaagacaattgggctgaaaaaattacgtgcagttctgttatctgggcatt-

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 3
GACTGCTTTGGAAGACCAATATCAAGTGCTCCTGATGCTTGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttccctttttgcatcagatacttagccttgtcttataaggagtatttagttttctctt---atttttggttgaagttagtttcttatctgtt-tattt
||||| ||||| ||||||||  |||||||||||||||||||||| |||||  |||||||  |||| ||||| || ||||||||| |||||||     | || |||   |   | || ||   || | || ||     |||||  |||| ||||   |     | | |  |    ||| || ||||   |||  
GACTGTTTTGGGAGACCAATTGCAAGTGCTCCTGATGCTTGGTTTGATGTTGTCGAACGCTACTCGAATGATAACAACAAGACACTGAAgtataaccctctgtttatttttcagacctataattatgttttat----tattttattttttctttgaaagggagatgggggaggatttattttctgaaatatca

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA02G07250.1 (Glycine max), 5'ss of exon 3
GACTGCTTTGGAAGACCAATATCAAGTGCTCCTGATGCTTGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttccctttttgcatcagatacttagccttgtcttataaggagtatttagttttctcttatttttggttgaagttagtttcttatctgtttattt
||||| ||||| ||||||||  | |||||||||||||| ||||| |||||  |||||||  |||| ||||| || ||||||||| |||||||   | | || |||   |   | || ||   || | || ||     | |||| |||| |||      | | ||           || | |  | |  |
GACTGTTTTGGGAGACCAATTGCGAGTGCTCCTGATGCATGGTTTGATGTAGTCGAACGCCACTCGAATGATAACAACAAGACACTGAAgtataatcctctgtttatttttcagacctataattatgttttattatttttttatttttttctctgagataggtggctgggacgatttgttttctgagat

upper sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT5G23670.1 (Arabidopsis thaliana), 5'ss of exon 3
GACTGCTTTGGAAGACCAATATCAAGTGCTCCTGATGCTTGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttccct--------ttttgcatcag-atacttagcctt----gtcttataaggagtatttagttttctcttatttttggttgaagttagtttcttatctgtttattt------------------------------------------------------------------------------------
|| || |||| | |||| ||||| ||||| |||||||||||||| |||||| | || ||  |||| |||||||| ||||||||  | |||| ||  |  ||        ||||  ||||| |  | |||| |      |  | |  |||| || |     |  || | ||    | |  | ||   |||| |    || |                                                                                      
GATTGTTTTGAACGACCTATATCGAGTGCACCTGATGCTTGGTTTGATGTGGTTGAGCGCTACTCTAATGACAACAACAAGACGCTTAAgtgagtctgtctacttgtgtttttctatcagtagtcgtagcttctttgattctgttgggagaatatgaaaatg-ctgaattcgaatggttgatacagtcttgtaaaattgtcccattcaagtttaattaggggaagatttgaattctaaattaagaaggttgctgagtaaacctttgttggtgttgactctgtgcag

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|352778118|gb|FQ467171.1|FQ467171
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349823630|gb|FQ415040.1|FQ415040
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349832894|gb|FQ423016.1|FQ423016
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|351033557|gb|FQ447716.1|FQ447716
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|351041981|gb|FQ456191.1|FQ456191
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|351054108|gb|FQ450190.1|FQ450190
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|352773004|gb|FQ470619.1|FQ470619
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|351046320|gb|FQ448625.1|FQ448625
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|351054020|gb|FQ441786.1|FQ441786
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349808540|gb|FQ405684.1|FQ405684
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349807664|gb|FQ402055.1|FQ402055
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGAGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349820492|gb|FQ408442.1|FQ408442
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349822627|gb|FQ412891.1|FQ412891
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|351015401|gb|FQ447230.1|FQ447230
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349819861|gb|FQ404535.1|FQ404535
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349819166|gb|FQ412060.1|FQ412060
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349820920|gb|FQ408628.1|FQ408628
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|351056259|gb|FQ453721.1|FQ453721
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|352782149|gb|FQ470051.1|FQ470051
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|351037559|gb|FQ462542.1|FQ462542
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATACCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349813001|gb|FQ411241.1|FQ411241
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|351021667|gb|FQ437052.1|FQ437052
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349822644|gb|FQ412908.1|FQ412908
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|352789617|gb|FQ476215.1|FQ476215
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|351032559|gb|FQ458924.1|FQ458924
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|352772806|gb|FQ473844.1|FQ473844
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349808891|gb|FQ406741.1|FQ406741
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|351032958|gb|FQ461847.1|FQ461847
EST:     TGGTTGGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349823382|gb|FQ402581.1|FQ402581
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349826514|gb|FQ418605.1|FQ418605
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349810608|gb|FQ402851.1|FQ402851
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|349817896|gb|FQ407885.1|FQ407885
EST:     TGGTTAGATGTGATCGAACGTAACTCCGATGACAATAACAAGACGTTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACGACTACCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT
EST: gi|351057058|gb|FQ448575.1|FQ448575
EST:     TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAA                         ACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTATCT
genomic: TGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttcc ... tttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACTGCTTTGGAAGACCAATATCAAGTGCTCCTGATGCTTGGTTAGATGTGATCGAACGTAACTCCAATGACAATAACAAGACATTGAAgtaaggttccctttttgcatcagatacttagccttgtcttataaggagtatttagttttctcttatttttggttgaagttagtttcttatctgtttattt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataagga