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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGATTGACAATGACCGTGGAGTGCATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcaccttctgtcttggcaccatttatgccactttagttaaaacataaaacatgctgctaatttgtattagaacctggtttggaaattcctgaacta...

Basic information

species Vitis vinifera
transcript Vv18s0001g13370.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g13370.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA04G03030.1 (Glycine max), 5'ss of exon 4
GTGATTGACAATGACCGTGGAGTGCATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcaccttctgtcttggcaccatttatgccactttagttaaaacata---aaacatgctgctaatttgtattagaacctggtttggaaattcctgaacta
|| ||||| |||||||| ||||| |  |||||||| |||||||||||| |||||||  || |||||||||||||||||   |   | |    |  |     |  ||    | | | ||| |       ||    |   |||  || |  |    ||||  |  ||  ||  ||  |  
GTTATTGATAATGACCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCTAAGgtacataatgtatagaatctcctatctcttggacatgttgctaacatgcttgtaattgagactctatcttttgcttttgcctgtat--gaggtttttggcca-

upper sequence: Vv18s0001g13370.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA06G03070.1 (Glycine max), 5'ss of exon 4
GTGATTGACAATGACCGTGGAGTGCATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcaccttctgt--cttggcaccatttatgccactttagtta-aaacataaaacatgctgctaatttgtattagaacctggtttggaaattcctgaacta
|| || || ||||| || ||||| |  |||||||| |||||||||||| |||||||  || |||||||||| ||||||   |   | |      | | | |  ||  | ||  ||  | | |  | |  ||    ||    || |||        || || || | |||  ||  |  
GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatgtatacaatctcgtatctgttg-gacatgttgctaacatgcttgtaattgactctctatctgttgcttttacttgtatg-agatttttggcca-

upper sequence: Vv18s0001g13370.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT1G75510.1 (Arabidopsis thaliana), 5'ss of exon 4
GTGATTGACAATGACCGTGGAGTGCATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacctt-ctgtcttggcaccatttatgccactttagttaaaacataaaacatgctgctaatttgtattagaacc--tggtttgga---aattcctgaacta----------------------------------------------------------------------
|| ||||| |||||||| ||||| ||||||||||| |||||||||||| ||||| |  || | |||||||| ||||||   |  ||  | ||||  ||    || |||   | | ||  || |||  ||   |     | || ||     ||||     |   |    ||| |   | | |                                                                      
GTTATTGATAATGACCGCGGAGTTCATATGAGGCCCATGCCTGGAATGCTTGGTTTAGTTTCCTCCAATTCCAAGgtaaaaatgttattctcttctcaatgattttgcatatatggtgtaatcattgaaatggtaaagagttagtgaagcaaccaacaatccagcttcaatactcaatccaaatttttatctttcctttgcctgatcagccttacgattgtagaagtttgtgtttgtgtttgaatgagcag

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|34543665|gb|CF511897.1|CF511897
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|110712491|gb|EE090172.1|EE090172
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAGGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|30303404|gb|CB980198.1|CB980198
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTTTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGCTTTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|33410257|gb|CF215884.1|CF215884
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|110701992|gb|EE080196.1|EE080196
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|33408011|gb|CF213638.1|CF213638
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGTTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|71876173|gb|DT025228.1|DT025228
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|33407925|gb|CF213552.1|CF213552
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|45368167|gb|CK906526.1|CK906526
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|110414213|gb|EC980040.1|EC980040
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|33410334|gb|CF215961.1|CF215961
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|45770574|gb|CN006426.1|CN006426
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGCTTTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|110713762|gb|EE089967.1|EE089967
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAAGGCTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|110702596|gb|EE081122.1|EE081122
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
EST: gi|110363914|gb|EC927546.1|EC927546
EST:     ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAG                         GATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA
genomic: ATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcacct ... tctctggcagGATAAGAAGAAAACTGCGCCAGTTAAGGGCTCTGACATGAAAAGAACTAGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGATTGACAATGACCGTGGAGTGCATATGAGGCCTATGCCTGGAATGGTTGGTCTGATTGCATCCAATTCTAAGgtattcaccttctgtcttggcaccatttatgccactttagttaaaacataaaacatgctgctaatttgtattagaacctggtttggaaattcctgaacta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttggaaa