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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattttttatttttagtttctgtttcttcttgctttttattggaaatgagtagcagagttcttagccttcaataattttggcaatggtgtcatatgatagGAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAGATGGACGAACTCTTGCTGACTACAACATCCAGAAAG

Basic information

species Vitis vinifera
transcript Vv08s0007g03030.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|110423576|gb|EC989923.1|EC989923
EST:     GAGCAGTGACACCATTGACAACGTCAAAGCAAAGATTCAGGACAAGGAAG                         GAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
genomic: GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAGgtctcttctt ... catatgatagGAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
EST: gi|34320049|gb|CF372803.1|CF372803
EST:     GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAG                         GAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
genomic: GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAGgtctcttctt ... catatgatagGAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
EST: gi|110393277|gb|EC958401.1|EC958401
EST:     GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAG                         GAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
genomic: GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAGgtctcttctt ... catatgatagGAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
EST: gi|110372238|gb|EC936391.1|EC936391
EST:     GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAG                         GAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
genomic: GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAGgtctcttctt ... catatgatagGAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
EST: gi|110389665|gb|EC954522.1|EC954522
EST:     GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAG                         GAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
genomic: GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAGgtctcttctt ... catatgatagGAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
EST: gi|110387474|gb|EC952140.1|EC952140
EST:     GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAG                         GAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
genomic: GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAGgtctcttctt ... catatgatagGAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
EST: gi|110417692|gb|EC983767.1|EC983767
EST:     GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAG                         GAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG
genomic: GAGCAGTGACACCATTGACAACGTCAAAGCGAAGATTCAGGACAAGGAAGgtctcttctt ... catatgatagGAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgagtagcagagttcttagccttcaataattttggcaatggtgtcatatgatagGAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAGATGGACGAACTCTTGCTGACTACAACATCCAGAAAG
                      ttcaataatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tattttttatttttagtttctgtttcttcttgctttttattggaaatgagtagcagagttcttagccttcaataattttggcaatggtgtcatatgatagGAATCCCACCGGATCAGCAGCGATTGATCTTCGCCGGAAAGCAGCTTGAAGATGGACGAACTCTTGCTGACTACAACATCCAGAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - -ctgtttc
- - - - - - - - - - - - - ttcttgc
- - - - - - - - - - - - - - - - - - - - - gaaatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gccttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaatgg