Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagaaatgtccttatatttcgattatttagtggatattccatggaatctagcagagttaagaataacatatttacctgtcaaatgactttgtggtagcagAGACTGTGGTGCTGGAGTTCAATCAATATACACCAGGTTCACGGTGGAGACGCACGTCCATCAACAGAAAAGACCATCGGGAAGAAGGAAATGAAGCAGA

Basic information

species Vitis vinifera
transcript Vv06s0009g02700.t01
intron # 4
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|22013912|gb|BQ798946.1|BQ798946
EST:     CTTGGAATCATGTGATGGGAATGAATCTTATTGCCGCTGTCATAATAGTG                         AGACTGTGGTGCTGGAGTTCAATCAATATACACCAGGTTCACGGTGGAGAC
genomic: CTTGGAATCATGTGATGGGAATGAATCTTATTGCCGCTGTCATAATAGTGgtgagttgat ... gtggtagcagAGACTGTGGTGCTGGAGTTCAATCAATATACACCAGGTTCACGGTGGAGAC
EST: gi|34542214|gb|CF510446.1|CF510446
EST:     CTTGGAATCATGTGATGGGAATGAATCTTATTGCCGCTGTCATAATAGTG                         AGACTGTGGTGCTGGAGTTCAATCAATATACACCAGGTTCACGGTGGAGAC
genomic: CTTGGAATCATGTGATGGGAATGAATCTTATTGCCGCTGTCATAATAGTGgtgagttgat ... gtggtagcagAGACTGTGGTGCTGGAGTTCAATCAATATACACCAGGTTCACGGTGGAGAC
EST: gi|33409673|gb|CF215300.1|CF215300
EST:     CTTGGAATCATGTGATGGGAATGAATCTTATTGCCGCTGTCATAATAGTG                         AGACTGTGGTGCTGGAGTTCAATCAATATACACCAGGTTCACGGTGGAGAC
genomic: CTTGGAATCATGTGATGGGAATGAATCTTATTGCCGCTGTCATAATAGTGgtgagttgat ... gtggtagcagAGACTGTGGTGCTGGAGTTCAATCAATATACACCAGGTTCACGGTGGAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctagcagagttaagaataacatatttacctgtcaaatgactttgtggtagcagAGACTGTGGTGCTGGAGTTCAATCAATATACACCAGGTTCACGGTGGAGACGCACGTCCATCAACAGAAAAGACCATCGGGAAGAAGGAAATGAAGCAGA
               gaataac  putative branch site (score: 2)
           ttaagaataacatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aagaaatgtccttatatttcgattatttagtggatattccatggaatctagcagagttaagaataacatatttacctgtcaaatgactttgtggtagcagAGACTGTGGTGCTGGAGTTCAATCAATATACACCAGGTTCACGGTGGAGACGCACGTCCATCAACAGAAAAGACCATCGGGAAGAAGGAAATGAAGCAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
aagaaat
- - - - - - - - - - - - - - - - - - - ccatgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaataac