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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccattctgatcttcgccttgtttgaatcagtgatctttatttggtgcttgttggtgcattaaacattgccctgattgtccttattatgggttctcacagTTTAGACAAGCCAAGACAGAGATCGTAACAGCCAGCAAAGTGGCATACCGATTCCTTTTGGGTGTTACTTCCAACTCAGCAGTCACTCCAGAATCCCCAA

Basic information

species Vitis vinifera
transcript Vv16s0050g01050.t01
intron # 3
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|161713166|gb|FC064316.1|FC064316
EST:     CCAATGCTGGTGATGCTGCCATGGAAGTAGCAGGAAATACAGCATTGCGG                         TTTAGACAAGCCAAGACAGAGATCGTAACAGCCAGCAAAGTGGCATACCGA
genomic: CCAATGCTGGTGATGCTGCCATGGAAGTAGCAGGAAATACAGCATTGCGGgtgagatatc ... gttctcacagTTTAGACAAGCCAAGACAGAGATCGTAACAGCCAGCAAAGTGGCATACCGA
EST: gi|110730010|gb|EE106598.1|EE106598
EST:     CAATGCTGGTGGATGCTGC-ATGGAAGTAGCAGGAAATACAGCATTGCGG                         TTTAGACAAGCCAAGACAGAGATCGNTA-CAGCCAGCAAAGT
genomic: CAATGCTGGTG-ATGCTGCCATGGAAGTAGCAGGAAATACAGCATTGCGGgtgagatatc ... gttctcacagTTTAGACAAGCCAAGACAGAGATCG-TAACAGCCAGCAAAGT
EST: gi|110712053|gb|EE089238.1|EE089238
EST:     CCAATGCTGGTGATGCTGCCATGGAAGTAGCAGGAA-TACAGCATTGCGG                         TTTAGA-AAGCCCAGACAGAGATCGTAACAGCCAGCAA-GTGGCATAC-GA
genomic: CCAATGCTGGTGATGCTGCCATGGAAGTAGCAGGAAATACAGCATTGCGGgtgagatatc ... gttctcacagTTTAGACAAGCCAAGACAGAGATCGTAACAGCCAGCAAAGTGGCATACCGA
EST: gi|110423046|gb|EC989381.1|EC989381
EST:     CCAATGCTGGTGATGCTGCCATGGAAGTAGCAGGAAATACAGCATTGCGG                         TTTAGACAAGCCAAGACAGAGATCGTAACAGCCAGCAAAGTGGCATACCGA
genomic: CCAATGCTGGTGATGCTGCCATGGAAGTAGCAGGAAATACAGCATTGCGGgtgagatatc ... gttctcacagTTTAGACAAGCCAAGACAGAGATCGTAACAGCCAGCAAAGTGGCATACCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttgttggtgcattaaacattgccctgattgtccttattatgggttctcacagTTTAGACAAGCCAAGACAGAGATCGTAACAGCCAGCAAAGTGGCATACCGATTCCTTTTGGGTGTTACTTCCAACTCAGCAGTCACTCCAGAATCCCCAA
                        ccctgat  putative branch site (score: 4)
                                              ttctcac  putative PPT
             attaaacatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tccattctgatcttcgccttgtttgaatcagtgatctttatttggtgcttgttggtgcattaaacattgccctgattgtccttattatgggttctcacagTTTAGACAAGCCAAGACAGAGATCGTAACAGCCAGCAAAGTGGCATACCGATTCCTTTTGGGTGTTACTTCCAACTCAGCAGTCACTCCAGAATCCCCAA

-ccattct
- - - - - - - -gccttgt
- - - - - - - - - - - - - - - - - - - - - - gtgcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - gtgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgccctg