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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattaaagatattctgaactgaagctggccaaataattgtatattagtattgctttctttgcaacgagcacagcgttaacattgtttgaatttgttgcagATGGAAGCTCTGGTTCTGACAAGAACAATGTGGAACTTGAACCGAAAAGGAAGGCAGTTCCCCGAAGAGAAACTCCAAATAAGCCAAACCAAACGCCTCC

Basic information

species Vitis vinifera
transcript Vv18s0072g00460.t01
intron # 6
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|34548933|gb|CF517165.1|CF517165
EST:     GTACCTGATTTTGCATATTCTCCAAATCCACACA                         ATGGAAGCTCTGGTTCCGACAAGAACAATGTGGAACTTGAACCGAAAAGGA
genomic: GTACCTGATTTTGCATATTCTCCAAATCCACACAgtaagtgatt ... tttgttgcagATGGAAGCTCTGGTTCTGACAAGAACAATGTGGAACTTGAACCGAAAAGGA
EST: gi|33407190|gb|CF212817.1|CF212817
EST:     GTACCTGATTTTGCATATTCTCCAAATCCACACA                         ATGGAAGCTCTGGTTCCGACAAGAACAATGTGGAACTTGAACCGAAAAGGA
genomic: GTACCTGATTTTGCATATTCTCCAAATCCACACAgtaagtgatt ... tttgttgcagATGGAAGCTCTGGTTCTGACAAGAACAATGTGGAACTTGAACCGAAAAGGA
EST: gi|110425162|gb|EC991541.1|EC991541
EST:     GTACCTGATTTTGCATATTCTCCAAATCCACACA                         ATGGAAGCTCTGGTTCTGACAAGAACAATGTGGAACTTGAACCGAAAAGGA
genomic: GTACCTGATTTTGCATATTCTCCAAATCCACACAgtaagtgatt ... tttgttgcagATGGAAGCTCTGGTTCTGACAAGAACAATGTGGAACTTGAACCGAAAAGGA
EST: gi|110415787|gb|EC981720.1|EC981720
EST:     GTACCTGATTTTGCATATTCTCCAAATCCACACA                         ATGGAAGCTCTGGTTCTGACAAGAACAATGTGGAACTTGAACCGAAAAGGA
genomic: GTACCTGATTTTGCATATTCTCCAAATCCACACAgtaagtgatt ... tttgttgcagATGGAAGCTCTGGTTCTGACAAGAACAATGTGGAACTTGAACCGAAAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtattgctttctttgcaacgagcacagcgttaacattgtttgaatttgttgcagATGGAAGCTCTGGTTCTGACAAGAACAATGTGGAACTTGAACCGAAAAGGAAGGCAGTTCCCCGAAGAGAAACTCCAAATAAGCCAAACCAAACGCCTCC
                            cgttaac  putative branch site (score: 3)
                                       tttgaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattaaagatattctgaactgaagctggccaaataattgtatattagtattgctttctttgcaacgagcacagcgttaacattgtttgaatttgttgcagATGGAAGCTCTGGTTCTGACAAGAACAATGTGGAACTTGAACCGAAAAGGAAGGCAGTTCCCCGAAGAGAAACTCCAAATAAGCCAAACCAAACGCCTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
aattaaa
- - - - - - - - - - - - ctggcca