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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tataattgcatcttcctaattgtcttctgttgcaggaatatagtaggccttttcttaatcttgagatctaattatttggttgctgatgttatatgaccagTTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG

Basic information

species Vitis vinifera
transcript Vv00s0566g00010.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|110391556|gb|EC956538.1|EC956538
EST:     TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGG                         TTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
genomic: TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGGgtattctcta ... atatgaccagTTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
EST: gi|110425102|gb|EC991479.1|EC991479
EST:     TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGG                         TTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
genomic: TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGGgtattctcta ... atatgaccagTTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
EST: gi|28966816|gb|CB345849.1|CB345849
EST:     TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGG                         TTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGCCCGCAAG
genomic: TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGGgtattctcta ... atatgaccagTTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
EST: gi|110718544|gb|EE095497.1|EE095497
EST:     TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGG                         TTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
genomic: TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGGgtattctcta ... atatgaccagTTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
EST: gi|29784715|gb|CB345795.2|CB345795
EST:     TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGG                         TTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
genomic: TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGGgtattctcta ... atatgaccagTTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
EST: gi|110377599|gb|EC942676.1|EC942676
EST:     TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGG                         TTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
genomic: TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGGgtattctcta ... atatgaccagTTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
EST: gi|110417869|gb|EC983965.1|EC983965
EST:     TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGG                         TTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
genomic: TTGCAGTTGGTGTTGGTACTCCTAACAAAGCTTGTATTCTTGCTGAGCGGgtattctcta ... atatgaccagTTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggccttttcttaatcttgagatctaattatttggttgctgatgttatatgaccagTTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG
                                   tgctgat  putative branch site (score: 3)
                  agatctaattattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tataattgcatcttcctaattgtcttctgttgcaggaatatagtaggccttttcttaatcttgagatctaattatttggttgctgatgttatatgaccagTTACCATTTCCAATGGACTGCCTTTATGCGGATCCTGACCGCAAG

- - - - catcttc
- - - - - - - - - - - -cttctgt
- - - - - - - - - - - - - - - -gcaggaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggttgc