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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGTTGACCCCATCTGGGCCAGTTGGCCAAACTCACTGGGGTGATTCAGGTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataatgtttttattttcttcatttattgttttgaagatcatatttgaggttgttcatgggtgttatgttttgctttcaatttctttagtggtgtgtatattcaatctcattttctcctgttgcttgacaatgattctcttgtttttatttcaacttgcag

Basic information

species Vitis vinifera
transcript Vv00s0652g00030.t01
intron # 20
splice site 5'
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|27585437|gb|CB008132.1|CB008132
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAG                         CAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|161716243|gb|FC066506.1|FC066506
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAG                         CAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|110724440|gb|EE100271.1|EE100271
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAG                         CAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|110731172|gb|EE109088.1|EE109088
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAG                         CAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|30301267|gb|CB978061.1|CB978061
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAG                         CAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|30299345|gb|CB976139.1|CB976139
EST:     TCTGCAGATGCCCAGTTG-A-                         -AGGAACTTGCTGCTATATTCAAGAAAATTGGTGGCAAGCAAACATGCACT
genomic: TCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|161712847|gb|FC062022.1|FC062022
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTG-A-                         -AGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|30301485|gb|CB978279.1|CB978279
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAG                         CAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGTTGACCCCATCTGGGCCAGTTGGCCAAACTCACTGGGGTGATTCAGGTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataatgtttttattttcttcatttattgttttgaagatcatatttgaggttgttcatgggtgttatgttttgctttcaatttctttagtggtgtgtatattcaatctcattttctcctgttgcttgacaatgattctcttgtttttatttcaacttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG