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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaagtgaaaacagtggtattgttatgtcggtcaatatctctgctaacacaatcactatataattttgtggtcttaatttattagttgttattcctgacagATTTCACATGCGGAGGAGGATGGGAATCCACTTTTGATGGCACTGAAGCAAAGGATCTTAGAATTTTCCAGTAATCTGGAAGCTTTTGTTCTGAATCTAA

Basic information

species Vitis vinifera
transcript Vv10s0042g01130.t01
intron # 1
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|33407208|gb|CF212835.1|CF212835
EST:     ACATTCGCCGTGTTCTTGCATTTACTGATTCCGAGATCTTATATGACCAG                         ATTTCACATGCGGAGGAGGATGGGAATCCACTTTTGATGGCACTGAAGCAA
genomic: ACATTCGCCGTGTTTTTGCATTTACTGATTCCGAGATCTTATATGACCAGgtgagcggtc ... ttcctgacagATTTCACATGCGGAGGAGGATGGGAATCCACTTTTGATGGCACTGAAGCAA
EST: gi|161711767|gb|FC059995.1|FC059995
EST:     TTTTTGCATTTACTGATTCCGAGATCTTATATGACCAG                         ATTTC-CATGCGGAGGAGGATGGGAATCCACTTTTGATGGCACTGAAGCAA
genomic: TTTTTGCATTTACTGATTCCGAGATCTTATATGACCAGgtgagcggtc ... ttcctgacagATTTCACATGCGGAGGAGGATGGGAATCCACTTTTGATGGCACTGAAGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acacaatcactatataattttgtggtcttaatttattagttgttattcctgacagATTTCACATGCGGAGGAGGATGGGAATCCACTTTTGATGGCACTGAAGCAAAGGATCTTAGAATTTTCCAGTAATCTGGAAGCTTTTGTTCTGAATCTAA
                                          ttattcct  CT-rich tract
          tatataattttgtggt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaagtgaaaacagtggtattgttatgtcggtcaatatctctgctaacacaatcactatataattttgtggtcttaatttattagttgttattcctgacagATTTCACATGCGGAGGAGGATGGGAATCCACTTTTGATGGCACTGAAGCAAAGGATCTTAGAATTTTCCAGTAATCTGGAAGCTTTTGTTCTGAATCTAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - -gaaaaca
- - - - - - - - - - - - - - - - - - tctctgc
- - - - - - - - - - - - - - - - - - - - - - - cacaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgtggt