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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaccatctacgccatttcatcctattctttgccttaacccatgaatacacaatatctgaagtcggtgtccatcctgcagGTATTTCTGCTTGGCTGTTCTTCACATCCCCTGTTATGGACTCTTTGCACTGATCATGAAAGCAAAAATTTCAATTTTTTCGAGATTCTTCCCCCACGAG

Basic information

species Vitis vinifera
transcript Vv07s0005g02170.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|110374265|gb|EC938934.1|EC938934
EST:     GTGGCCATACCCTTTCCTCGAGCTTTCAACACAATGGGCGCCTCTATG                         GTATTTCTGCTTGGCTGTTC
genomic: GTGGCCATACCCTTTCCTCGAGCTTTCAACACAATGGGCGCCTCTATGgtaaaccatc ... catcctgcagGTATTTCTGCTTGGCTGTTC
EST: gi|110411341|gb|EC977050.1|EC977050
EST:     GTGGCCATACCCTTTCCTGGAGCTTTCAACACCATGGGCGCCTCTATG                         GTATTTCTGCTTGGCTGTTCTTCACATCCCCTGTTATGGACTCTTTGCACT
genomic: GTGGCCATACCCTTTCCTCGAGCTTTCAACACAATGGGCGCCTCTATGgtaaaccatc ... catcctgcagGTATTTCTGCTTGGCTGTTCTTCACATCCCCTGTTATGGACTCTTTGCACT
EST: gi|30135410|gb|CB920748.1|CB920748
EST:     GTGGCCATACCCTTTCCTCGAGCTTTCAACACAATGGGCGCCTCTATG                         GTATTTCTGCTTGGCTGTTCTTCACATCCCCTGTTATGGACTCTTTGCACT
genomic: GTGGCCATACCCTTTCCTCGAGCTTTCAACACAATGGGCGCCTCTATGgtaaaccatc ... catcctgcagGTATTTCTGCTTGGCTGTTCTTCACATCCCCTGTTATGGACTCTTTGCACT
EST: gi|110421152|gb|EC987442.1|EC987442
EST:     GTGGCCATACCCTTTCCTCGAGCTTTCAACACAATGGGCGCCTCTATG                         GTATTTCTGCTTGGCTGTTCTTCACATCCCCTGTTATGGACTCTTTGCACT
genomic: GTGGCCATACCCTTTCCTCGAGCTTTCAACACAATGGGCGCCTCTATGgtaaaccatc ... catcctgcagGTATTTCTGCTTGGCTGTTCTTCACATCCCCTGTTATGGACTCTTTGCACT
EST: gi|110732125|gb|EE107140.1|EE107140
EST:     GTGGCCATACCCTTTCCTCGAGCTTTCAACACAATGGGCGCCTCTATG                         GTATTTCTGCTTGGCTGTTCTTCACATCCCCTGTTATGGACTCTTTGCACT
genomic: GTGGCCATACCCTTTCCTCGAGCTTTCAACACAATGGGCGCCTCTATGgtaaaccatc ... catcctgcagGTATTTCTGCTTGGCTGTTCTTCACATCCCCTGTTATGGACTCTTTGCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttgccttaacccatgaatacacaatatctgaagtcggtgtccatcctgcagGTATTTCTGCTTGGCTGTTCTTCACATCCCCTGTTATGGACTCTTTGCACTGATCATGAAAGCAAAAATTTCAATTTTTTCGAGATTCTTCCCCCACGAG
       ccttaac  putative branch site (score: 3)
                                           tccatcct  putative PPT
                atgaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaccatctacgccatttcatcctattctttgccttaacccatgaatacacaatatctgaagtcggtgtccatcctgcagGTATTTCTGCTTGGCTGTTCTTCACATCCCCTGTTATGGACTCTTTGCACTGATCATGAAAGCAAAAATTTCAATTTTTTCGAGATTCTTCCCCCACGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA