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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccgcaatctcccttcagtattttattatcatttgaaaatttcattggtctttgtgcttgtagtttatatttgtgcatttctatagtgcctgctctgtgttgtagagtgattgattatttgtttgtgaag

Basic information

species Vitis vinifera
transcript Vv14s0030g01620.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0030g01620.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT5G28060.1 (Arabidopsis thaliana), 5'ss of exon 2
ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccgcaatctcccttcagtattttattatcatttgaaaatttcattggtctttgtgcttgtagtttatatttgtgcatttctatagtgcctgctctgtgttgtagagtgattgattatttgtttgtgaag
 | ||||||||||||||||| |||||| |||||||||| ||||||   ||     | | | | || |   || |  | |||  | |||   |   |  | ||   ||||      ||||      ||||| |||||  || | |||  ||    | | ||   || |||||||     
GTTATTGATGTTCTTCATCCTGGAAGAGCCAATGTTTCAAAGgtatgttc-----tttacgtacattggcttgtgttgatt--acaatccaa---gcttgtgcagttgtg-----tatt-----gtttct-tagtga-tgttgtgtactgggtggggctt---tacttgtttgaag--

upper sequence: Vv14s0030g01620.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT3G04920.1 (Arabidopsis thaliana), 5'ss of exon 2
ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccgcaatctcccttcagtattttattatcatttgaaaatttcattggtctttgtgcttgtagtttatatttgtgcatttctatagtgcctgctctgtgttgtagagtgattgattatttgtttgtgaag
 | |||||||||||||| || |||||| |||||||||| |||||    ||   |  ||| |||   || || ||    ||||  |  | | || |    |       |  |||   |   | |  ||  | |  |   |||                                     
GTTATTGATGTTCTTCACCCTGGAAGAGCCAATGTTTCAAAGgtttgttcttta--ctcactttgttacttcatc--tatttcgagttctgatagactatga-----gaggttctaacgggagagttggttttatttttgcaag----------------------------------
















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|34550927|gb|CF519135.1|CF519135
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|110362912|gb|EC926471.1|EC926471
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|30321070|gb|CD004332.1|CD004332
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|71866240|gb|DT015295.1|DT015295
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|71872113|gb|DT021168.1|DT021168
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|18458660|gb|BM436938.1|BM436938
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTTTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|30135948|gb|CB921286.1|CB921286
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|37184145|gb|CF603499.1|CF603499
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|351029237|gb|FQ435437.1|FQ435437
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|71874519|gb|DT023574.1|DT023574
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|110714825|gb|EE092178.1|EE092178
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|110701352|gb|EE078828.1|EE078828
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|110407407|gb|EC973007.1|EC973007
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|37187949|gb|CF607300.1|CF607300
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|352785814|gb|FQ475817.1|FQ475817
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|46919451|gb|CN548780.1|CN548780
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCATGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|110694122|gb|EE070954.1|EE070954
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|32458654|gb|CD799828.1|CD799828
EST:     AGGAAGACCCAATGTTTTTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCACGTATGAGGTGAAGGATCCCAAT
genomic: AGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|351053839|gb|FQ441605.1|FQ441605
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|32268605|gb|CD717764.1|CD717764
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|110402749|gb|EC963356.1|EC963356
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|32269613|gb|CD718772.1|CD718772
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|110400221|gb|EC966773.1|EC966773
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|110707923|gb|EE084876.1|EE084876
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|34319409|gb|CF372163.1|CF372163
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|351049488|gb|FQ429110.1|FQ429110
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|110391519|gb|EC956500.1|EC956500
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|34416045|gb|CF414799.1|CF414799
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|77578503|gb|DV218045.1|DV218045
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|22007443|gb|BQ792477.1|BQ792477
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTTTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|110701262|gb|EE078640.1|EE078640
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|161718020|gb|FC068553.1|FC068553
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|30296070|gb|CB972864.1|CB972864
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|110396446|gb|EC962132.1|EC962132
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|87585035|gb|DY473961.1|DY473961
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|349813139|gb|FQ411379.1|FQ411379
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCTAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|71889488|gb|DT038543.1|DT038543
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
EST: gi|351026260|gb|FQ428272.1|FQ428272
EST:     ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAG                         GCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT
genomic: ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccg ... gtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCATTGATGTTCTTCATCCAGGAAGACCCAATGTTTCTAAGgtaatctccgcaatctcccttcagtattttattatcatttgaaaatttcattggtctttgtgcttgtagtttatatttgtgcatttctatagtgcctgctctgtgttgtagagtgattgattatttgtttgtgaag

- - - - - - - - - -  GGAAGA