Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcattgattgcaaccagatttgtataaattctgactcactatgtatttgcatcccatgggcctgaatgatgattatcactgtggaatatttgatttttgatatccagttttggttttgcttattaaacacgatctcctcatgcctggatatgtatgcatatgcagTCAGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGCAGTCGTGATGCAGTTATTGTTGGAGGTGAATCTGACCCGTCTCGATCTC

Basic information

species Vitis vinifera
transcript Vv09s0002g01740.t01
intron # 13
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|71890736|gb|DT039791.1|DT039791
EST:     GTCCAGTTGCAAATGATTCAACAATGGCAAAAGATAGTCTG                         TCCGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGC
genomic: GTCCAGTTGCAAATGATTCAACAATGGCAAAAGATAGTCTGgtaagcattg ... gcatatgcagTCAGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGC
EST: gi|34545751|gb|CF513983.1|CF513983
EST:     AACAAAAAAGTCCAGTTGCAAATGATTCAACAATGACAAAAGATAGTCTG                         TCAGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGC
genomic: AACAAAAAAGTCCAGTTGCAAATGATTCAACAATGGCAAAAGATAGTCTGgtaagcattg ... gcatatgcagTCAGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGC
EST: gi|110408669|gb|EC974309.1|EC974309
EST:     AACAAAAAAGTCCAGTTGCAAATGATTCAACAATGGCAAAAGATAGTCTG                         TCCGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGC
genomic: AACAAAAAAGTCCAGTTGCAAATGATTCAACAATGGCAAAAGATAGTCTGgtaagcattg ... gcatatgcagTCAGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGC
EST: gi|34545826|gb|CF514058.1|CF514058
EST:     AACAAAAAAGTCCAGTTGCAAATGAATCAACAATGACAAAAGATAGTCTG                         TCAGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGC
genomic: AACAAAAAAGTCCAGTTGCAAATGATTCAACAATGGCAAAAGATAGTCTGgtaagcattg ... gcatatgcagTCAGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGC
EST: gi|110384373|gb|EC948804.1|EC948804
EST:     AACAAAAAAGTCCAGTTGCAAATGATTCAACAATGGCAAAAGATAGTCTG                         TCAGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGC
genomic: AACAAAAAAGTCCAGTTGCAAATGATTCAACAATGGCAAAAGATAGTCTGgtaagcattg ... gcatatgcagTCAGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggttttgcttattaaacacgatctcctcatgcctggatatgtatgcatatgcagTCAGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGCAGTCGTGATGCAGTTATTGTTGGAGGTGAATCTGACCCGTCTCGATCTC
         ttattaaaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcattgattgcaaccagatttgtataaattctgactcactatgtatttgcatcccatgggcctgaatgatgattatcactgtggaatatttgatttttgatatccagttttggttttgcttattaaacacgatctcctcatgcctggatatgtatgcatatgcagTCAGCTAATGTGAGGGCAAGTGGATCATCAAGGCGAGGTGCAGTTTCTAGCAGTCGTGATGCAGTTATTGTTGGAGGTGAATCTGACCCGTCTCGATCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG