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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagggcattaacaaaagacataaattttcttgcttcacttcttggattgagcttatggatgattgcttgatgaattggtttgcttttgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAATGCCCAGTTTGCTGAATACGAACGCAAGTATAAAGAAGAAGCTGCAGTA

Basic information

species Vitis vinifera
transcript Vv15s0048g00370.t01
intron # 5
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|161714022|gb|FC064097.1|FC064097
EST:     AACCTTCGATGGCCATATGAGCCTTTCCATGTACCCGAGGATGTCAAGAA                         GCATTGGAGCCGCCATGTTCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
genomic: AACCTTCGATGGCCATATGAGCCTTTCCATGTACCCGAGGATGTCAAGAAgtaagggcat ... tgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
EST: gi|56409443|gb|CX017695.1|CX017695
EST:     CGAGGATGTCAAGAA                         GCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
genomic: CGAGGATGTCAAGAAgtaagggcat ... tgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
EST: gi|56409268|gb|CX017520.1|CX017520
EST:     CCGAGGATGTCAAGAA                         GCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
genomic: CCGAGGATGTCAAGAAgtaagggcat ... tgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
EST: gi|110730448|gb|EE107540.1|EE107540
EST:     AACCTTCGATGGCCATATGAGCCTTTCCATGTACCCGAGGATGTCAAGAA                         GCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
genomic: AACCTTCGATGGCCATATGAGCCTTTCCATGTACCCGAGGATGTCAAGAAgtaagggcat ... tgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
EST: gi|37187325|gb|CF606678.1|CF606678
EST:     AACCTTCGATGGCCATATGAGCCTTTCCATGTACCCGAGGATGTCAAGAA                         GCATTGGAGCCGCCATGTTCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
genomic: AACCTTCGATGGCCATATGAGCCTTTCCATGTACCCGAGGATGTCAAGAAgtaagggcat ... tgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
EST: gi|56409018|gb|CX017270.1|CX017270
EST:     CGAGGATGTCAAGAA                         GCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
genomic: CGAGGATGTCAAGAAgtaagggcat ... tgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
EST: gi|110699413|gb|EE076391.1|EE076391
EST:     AACCTTCGATGGCCATATGAGCCTTTCCATGTACCCGAGGATGTCAAGAA                         GCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
genomic: AACCTTCGATGGCCATATGAGCCTTTCCATGTACCCGAGGATGTCAAGAAgtaagggcat ... tgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
EST: gi|161718402|gb|FC065025.1|FC065025
EST:     AACCTTCGATGGCCATATGAGCCTTTCCATGTACCCGAGGATGTCAAGAA                         GCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
genomic: AACCTTCGATGGCCATATGAGCCTTTCCATGTACCCGAGGATGTCAAGAAgtaagggcat ... tgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
EST: gi|56409741|gb|CX017993.1|CX017993
EST:     CGAGGATGTCAAGAA                         GCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
genomic: CGAGGATGTCAAGAAgtaagggcat ... tgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
EST: gi|110689357|gb|EE065511.1|EE065511
EST:     AACCTTCGATGGCCATATGAGCCTTTCCATGTACCCGAGGATGTCAAGAA                         GCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA
genomic: AACCTTCGATGGCCATATGAGCCTTTCCATGTACCCGAGGATGTCAAGAAgtaagggcat ... tgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggattgagcttatggatgattgcttgatgaattggtttgcttttgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAATGCCCAGTTTGCTGAATACGAACGCAAGTATAAAGAAGAAGCTGCAGTA
                       gcttgat  putative branch site (score: 5)
                                     tttgcttttgttcctt  putative PPT
                            atgaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagggcattaacaaaagacataaattttcttgcttcacttcttggattgagcttatggatgattgcttgatgaattggtttgcttttgttccttagGCATTGGAGCCGCCATGTCCCTGAAGGTGCAGCTCTGGAAGCTGAATGGAATGCCCAGTTTGCTGAATACGAACGCAAGTATAAAGAAGAAGCTGCAGTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG