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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTTAATCTCAAGAAGGAGACTTTGCGACTCGAGCCTGATGAGGAACACCCTGGGCGCTTCCTTGTTGCCTTCACATTCGATGCCACGGTTCCAGGGAGgtatatgccttccttgaattttgctgaaatttcatgccttatgcttcaattgagattaacattatacggaaattgataataagggtgtaaatgtccttat...

Basic information

species Vitis vinifera
transcript Vv08s0040g01940.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0040g01940.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G036697_T01 (Zea mays), 5'ss of exon 1
ATGTTAATCTCAAGAAGGAGACTTTGCGACTCGAGCCTGATGAGGAACACCCTGGGCGCTTCCTTGTTGCCTTCACATTCGATGCCACGGTTCCAGGGAGgta--tatgccttccttgaattttgctgaaatttcatgccttatgcttcaattgagattaacattatacggaaattgataataagggtgtaaatgtccttat-----
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ACATCAACCTTAAGAAGGAGACGCTTCGGATCGAGCCTGATGAAGAACGCCCTGGCCGCTTCCTCGTCGCCTTCACCTTTGACGCCACGGTCGCTGGCAGgtgattattcacatattcagtatttcagtccactta-acattaaacacatgctgtattctaatttctat-----ttcatgtttaca-tgcgaatctcctctggtatc
















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|37184232|gb|CF603586.1|CF603586
EST:     CCTGGGCGCTTCCTTGTTGCCTTCACATTCGATGCCACGGTTCCAGGGAG                         CATCACCATTATTTTCTTTGCAAAAGAAGGCGAAGACTGTAGCCTGTCGCC
genomic: CCTGGGCGCTTCCTTGTTGCCTTCACATTCGATGCCACGGTTCCAGGGAGgtatatgcct ... ctgcaaacagCATCACCATTATTTTCTTTGCAAAAGAAGGCGAAGACTGTAGCCTGTCGCC
EST: gi|110712965|gb|EE088470.1|EE088470
EST:     CCTGNGCGCTTCCTTGTTGCCTTCACATTCGATGCCACGGTTCCAGGGAG                         CATCACCATTATTTTCTTTGCAAAAGAAAGCGAAGACTGTAGCCTGTCGCC
genomic: CCTGGGCGCTTCCTTGTTGCCTTCACATTCGATGCCACGGTTCCAGGGAGgtatatgcct ... ctgcaaacagCATCACCATTATTTTCTTTGCAAAAGAAGGCGAAGACTGTAGCCTGTCGCC
EST: gi|110710876|gb|EE087429.1|EE087429
EST:     CCTGNGCGCTTCCTTGTTGCCTTCACATTCGATGCCACGGTTCCAGGGAG                         CATCACCATTATTTTCTTTGCAAAAGAAGGCGAAGACTGTAGCCTGTCGCC
genomic: CCTGGGCGCTTCCTTGTTGCCTTCACATTCGATGCCACGGTTCCAGGGAGgtatatgcct ... ctgcaaacagCATCACCATTATTTTCTTTGCAAAAGAAGGCGAAGACTGTAGCCTGTCGCC
EST: gi|30129099|gb|CB914438.1|CB914438
EST:     CCTGGGCGCTTCCTTGTTGCCTTCACATTCGATGCCACGGTTCCAGGGAG                         CATCACCATTATTTTCTTTGCAAAAGAAGGCGAAGACTGTAGCCTGTCGCC
genomic: CCTGGGCGCTTCCTTGTTGCCTTCACATTCGATGCCACGGTTCCAGGGAGgtatatgcct ... ctgcaaacagCATCACCATTATTTTCTTTGCAAAAGAAGGCGAAGACTGTAGCCTGTCGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGTTAATCTCAAGAAGGAGACTTTGCGACTCGAGCCTGATGAGGAACACCCTGGGCGCTTCCTTGTTGCCTTCACATTCGATGCCACGGTTCCAGGGAGgtatatgccttccttgaattttgctgaaatttcatgccttatgcttcaattgagattaacattatacggaaattgataataagggtgtaaatgtccttat

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