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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATGTTCCCCAGTATTTTTATGGCCTTTCACCTTCACAAATGGACATGTTCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttcttcaaaactccctaatctcagctcactgtacatccaagtggcttcgatttctaaaagaagccccagaataactaaatcatcttagtagtcca...

Basic information

species Vitis vinifera
transcript Vv03s0091g00700.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0091g00700.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA20G26950.1 (Glycine max), 5'ss of exon 3
AAATGTTCCCCAGTATTTTTATGGCCTTTCACCTTCACAAATGGACATGTTCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgt--catttcttcaaaactccctaatctc-agctcactgta----catccaagtggcttcgatt-tctaaaagaagccccagaataactaaatcatcttagtagtcca----------------------------------------------------------------
 ||||  || || | | | ||||||||||| |||||||||||||||||||||||||||||||||||||| ||  | | ||| || |||||||||||||||||  ||   | |  |  ||  ||| | || | ||   |||      ||  ||      | |  | |||| ||           ||     | |    || | |   ||                                                                
GAATGCACCTCAATCTCTATATGGCCTTTCTCCTTCACAAATGGACATGTTCATGACAGAAGATAATCCTATCCGTCAGCAATCTGAAAGAGTTACAGAGgtctcaccacatatatccttgctactatctaactggttgtgatgttataaaatcaaagttgcctatctataatctaattattgattgtggagttgattttgcaaagcacccaaattttatcacagcatatttgactgttcaaaagtgctcttaattttaatcattgtgacag

upper sequence: Vv03s0091g00700.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA10G40390.1 (Glycine max), 5'ss of exon 2
AAATGTTCCCCAGTATTTTTATGGCCTTTCACCTTCACAAATGGACATGTTCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttcttcaaaactccctaat----ctcagctcactgt-acatccaagtggcttcgatttctaaaagaagccccag--aataactaaatcatcttagtagtcca----------------------------------------------------------------------------
 ||||  || || | | | ||||||||||| |||||||||||||||||||||||||||||||||||||| ||  | | ||| || |||||||||||||||||  |  |  || |  ||| |  |       | ||  |||| |  |   | | ||   |    |||     | ||  |   | ||| ||  |    || | |||  |                                                                            
GAATGCACCTCAATCTCTATATGGCCTTTCTCCTTCACAAATGGACATGTTCATGACAGAAGATAATCCTATCCGTCAGCAATCTGAAAGAGTTACAGAGgttctcaccacatatatccttgctactgtctaactggctgtgatgttataatagcaaagtggcctatctataacctaatttagtaatta--ttgattttggagttgattttgcaaagcacccaaattttatcacagcatatttgattgttcaaaagtgctcttaattttaatcattgtgacag
















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|110396404|gb|EC962089.1|EC962089
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|110713462|gb|EE089402.1|EE089402
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATTTGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|110686908|gb|EE063865.1|EE063865
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCTGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATTTGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|28968092|gb|CB347125.1|CB347125
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATTTGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|26257375|gb|CA808438.1|CA808438
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|351025662|gb|FQ426676.1|FQ426676
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|351030338|gb|FQ432276.1|FQ432276
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|71866707|gb|DT015762.1|DT015762
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATTTGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|110710998|gb|EE087695.1|EE087695
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATTTGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|26257779|gb|CA808842.1|CA808842
EST:     CCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCACCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|352795065|gb|FQ477175.1|FQ477175
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|110685602|gb|EE062466.1|EE062466
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|26264973|gb|CA816036.1|CA816036
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATTTGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|26258048|gb|CA809111.1|CA809111
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|26267206|gb|CA818269.1|CA818269
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATTTGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT
EST: gi|18458865|gb|BM437143.1|BM437143
EST:     TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAG                         GAAAGCATCTCATCTGCTCGGAATTATTTGGATAATGGAGGGATGTGGAGT
genomic: TCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttctt ... ctgttaacagGAAAGCATCTCATCTGCTCGGAATTATATGGATAATGGAGGGATGTGGAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAATGTTCCCCAGTATTTTTATGGCCTTTCACCTTCACAAATGGACATGTTCATGACAGAAGATAATCCCATTAGCCGGCAGTCAGAAAGAGTTACAGAGgtcatttcttcaaaactccctaatctcagctcactgtacatccaagtggcttcgatttctaaaagaagccccagaataactaaatcatcttagtagtcca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcccta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaataa