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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCACAAAACGATGAGAGATCCTTGAAGAAAGCTGTGGCAAATCAACCAGTTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgaccatgtcctctcaccacccttcagaaaagcttgccattatatgcttcgagaatgataagtgcatacacacatacataatacatacatgcata...

Basic information

species Vitis vinifera
transcript Vv03s0180g00010.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0180g00010.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA10G23650.1 (Glycine max), 5'ss of exon 4
TCCACAAAACGATGAGAGATCCTTGAAGAAAGCTGTGGCAAATCAACCAGTTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgaccatgtcctctcaccacccttcagaaaagcttgccattatatgcttcgagaatgataagtgcatacacacataca---taatacatacatgcata-
 |||   || ||||||| ||| |||| ||| ||||| ||||| ||||| || ||||||||||| ||||| ||||||| ||  || ||||| || || || ||||       | |  | | ||||   ||   |     || | |||  |     | |  |    ||| | | |     | |||   ||||| ||    |  || 
CCCAACCAATGATGAGAAATCTTTGATGAAGGCTGTTGCAAACCAACCTGTCAGTGTTGCCATTGAAGCTGGTGGCATGGAATTTCAACTTTATCAATCGgtaatattttgtattattt-accagtttt---agcctttttctatttaacttagctaataatgcaagcgaaaattataacacaatctaatagattttcgggtac
















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|156737324|gb|EV241445.1|EV241445
EST:     TTAGTGTTGCCATCGAAGCTGGTGGCAGGGCTTTCCAACTCTACCAGTCA                         GGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
EST: gi|30124797|gb|CB910136.1|CB910136
EST:     TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCA                         GGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
EST: gi|110356923|gb|EC920101.1|EC920101
EST:     TTAGTGGTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCA                         GGTGTATTTACCGGTCAG
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCAG
EST: gi|349825534|gb|FQ419451.1|FQ419451
EST:     TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCA                         GGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
EST: gi|110388288|gb|EC953023.1|EC953023
EST:     TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCA                         GGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
EST: gi|110359126|gb|EC920097.1|EC920097
EST:     TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCA                         GGTGTATTTACCGGTCAGTGCGGGA
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCAGTGCGGGA
EST: gi|110720888|gb|EE097202.1|EE097202
EST:     TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCA                         GGTGTATTTACCGGTC
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTC
EST: gi|71867393|gb|DT016448.1|DT016448
EST:     TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCA                         GGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
EST: gi|156737323|gb|EV241444.1|EV241444
EST:     TTAGTGTTGCCATCGAAGCTGG-GGCAGGGC-TTCCAACTCTACCAGTCA                         GGTGTATTTACC-GTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
EST: gi|110720629|gb|EE096718.1|EE096718
EST:     TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCA                         GGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
EST: gi|110718465|gb|EE095330.1|EE095330
EST:     TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCA                         G-TGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAATTGCT
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
EST: gi|110356759|gb|EC919821.1|EC919821
EST:     TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCA-CTCTACCAGTCA                         GGTGTATTTACCGGTCA
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCA
EST: gi|110391796|gb|EC956797.1|EC956797
EST:     TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCA                         GGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCAGTGCGGGACACAATTGGATCATGGTGTAGTTGCT
EST: gi|110359109|gb|EC920049.1|EC920049
EST:     TTAGTGGTGCCATCGGAGCCGGTGGCAGGGCTTTC-AACTCTACCAGTCA                         GGTGTATTTACCGGTCAGTGCGGG
genomic: TTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgacc ... atctatgtagGGTGTATTTACCGGTCAGTGCGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCACAAAACGATGAGAGATCCTTGAAGAAAGCTGTGGCAAATCAACCAGTTAGTGTTGCCATCGAAGCCGGTGGCAGGGCTTTCCAACTCTACCAGTCAgtaagtgaccatgtcctctcaccacccttcagaaaagcttgccattatatgcttcgagaatgataagtgcatacacacatacataatacatacatgcata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagaatga