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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtcttcattgtgttgattacatgatgataaaatattttcttgaaattttatcagaatattgtgtttaatttgagatgattaattgttttttaatgacagAACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCTTAAGTTCAGAAGACAAGCAAGAAGATGAAGATGGTGACCAAGACAATGA

Basic information

species Vitis vinifera
transcript Vv02s0025g04540.t01
intron # 7
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|30324077|gb|CD007339.1|CD007339
EST:     GCCTGTTCGCGAGACCCAAGAGAGCAATATTCAGCAGGAATCTAA---T-                         AACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCT
genomic: GCCTGTTCGCGAGACCCAAGAGAGCAATATTCAGCAGGAATCTAATGCTGgtgtgtttat ... ttaatgacagAACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCT
EST: gi|32271598|gb|CD720757.1|CD720757
EST:     GCCTGTTCGCGAGACCCAAGAGAGCAATATTCAGCAGGAATCTAATGCTG                         AACCAGTAGAGAATGATGCACTTGAA
genomic: GCCTGTTCGCGAGACCCAAGAGAGCAATATTCAGCAGGAATCTAATGCTGgtgtgtttat ... ttaatgacagAACCAGTAGAGAATGATGCACTTGAA
EST: gi|32268084|gb|CD717243.1|CD717243
EST:     GCCTGTTCGCGAGACCCAAGAGAGCAATATTCAGCAGGAATCTAA---T-                         AACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCT
genomic: GCCTGTTCGCGAGACCCAAGAGAGCAATATTCAGCAGGAATCTAATGCTGgtgtgtttat ... ttaatgacagAACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCT
EST: gi|30326530|gb|CD009792.1|CD009792
EST:     GCCTGTTCGCGAGACCCAAGAGAGCAATATTCAGCAGGAATCTAATGCTG                         AACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCT
genomic: GCCTGTTCGCGAGACCCAAGAGAGCAATATTCAGCAGGAATCTAATGCTGgtgtgtttat ... ttaatgacagAACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCT
EST: gi|110356940|gb|EC920131.1|EC920131
EST:     GCCTGTTCGCGAGACCCAAGAGAGCAATATTCAGCAGGAATCTAATGCTG                         AACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCT
genomic: GCCTGTTCGCGAGACCCAAGAGAGCAATATTCAGCAGGAATCTAATGCTGgtgtgtttat ... ttaatgacagAACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCT
EST: gi|110384571|gb|EC949018.1|EC949018
EST:     CCCAAGAGAGCAATATTCAGCAGGAATCTAATGCTG                         AACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCT
genomic: CCCAAGAGAGCAATATTCAGCAGGAATCTAATGCTGgtgtgtttat ... ttaatgacagAACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCT
EST: gi|30327947|gb|CD011209.1|CD011209
EST:     GCCTGTTCGCGAGACCCAAGAGAGCAATATTCAGCAGGAATCTAA---T-                         AACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCT
genomic: GCCTGTTCGCGAGACCCAAGAGAGCAATATTCAGCAGGAATCTAATGCTGgtgtgtttat ... ttaatgacagAACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttatcagaatattgtgtttaatttgagatgattaattgttttttaatgacagAACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCTTAAGTTCAGAAGACAAGCAAGAAGATGAAGATGGTGACCAAGACAATGA
                                           ttttaat  putative branch site (score: 3)
                                      ttgtttttt  CT-rich tract
                   tttaatttgagatgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtcttcattgtgttgattacatgatgataaaatattttcttgaaattttatcagaatattgtgtttaatttgagatgattaattgttttttaatgacagAACCAGTAGAGAATGATGCACTTGAAAAGGGTCTTGCTCAACCATTGCTCTTAAGTTCAGAAGACAAGCAAGAAGATGAAGATGGTGACCAAGACAATGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
tgtcttc
- - - - - - - - -ttacatg
- - - - - - - - - - - - - gataaaa