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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaacccagatgtattttattttattattattcttaaattttcaagtgtttggagcttaaaacttagatgggtgtatcttcgtctgtgttatttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTATTGAAAGAAGAC

Basic information

species Vitis vinifera
transcript Vv04s0008g05760.t01
intron # 1
splice site 3'
intron type U2

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|37189794|gb|CF609143.1|CF609143
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
EST: gi|71863063|gb|DT012118.1|DT012118
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
EST: gi|37189518|gb|CF608867.1|CF608867
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
EST: gi|29785116|gb|CB341851.2|CB341851
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
EST: gi|28963677|gb|CB342710.1|CB342710
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
EST: gi|37189569|gb|CF608918.1|CF608918
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
EST: gi|71859000|gb|DT008055.1|DT008055
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
EST: gi|161716070|gb|FC069125.1|FC069125
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
EST: gi|71862553|gb|DT011608.1|DT011608
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
EST: gi|71861352|gb|DT010407.1|DT010407
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
EST: gi|110703174|gb|EE079787.1|EE079787
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
EST: gi|71862955|gb|DT012010.1|DT012010
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA
EST: gi|71860157|gb|DT009212.1|DT009212
EST:     TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCT                         AAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAGCCCTCTCCAGTA
genomic: TGGACCTCAAGCCTAATCCTCCTGCGAACAGCCTTGGCGACTTCTCTCCTgtgagtagct ... atttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtttggagcttaaaacttagatgggtgtatcttcgtctgtgttatttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTATTGAAAGAAGAC
                                           ttatttct  CT-rich tract
           ttaaaactta  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaacccagatgtattttattttattattattcttaaattttcaagtgtttggagcttaaaacttagatgggtgtatcttcgtctgtgttatttctgcagAAGAGAGGAGATTGTGTGGATGTGGATGTGGAAAGGAAACCCTCTCCAGTATTGAAAGAAGAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
-aaaccca
- - - - - - - - - - - - - - - - - - - - - - - tgtttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -cttaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgggtgt