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

gtaagtttggtttacatactaagatgtacatatatcaaaatgaaaccccatatcaacaatcattaattcttctaaatatgattattactcaaatatttaactacataagttgaatcagTGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGCAGTGCAAGGCACAAAGTACCCAGGAGGATCAAATCCAGCACAAGTTGTT

Basic information

species Vitis vinifera
transcript Vv12s0028g01360.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|30324102|gb|CD007364.1|CD007364
EST:     TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGAAG                         TGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
genomic: TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGTAGgtaagtttgg ... gttgaatcagTGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
EST: gi|32267841|gb|CD717000.1|CD717000
EST:     TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGAAG                         TGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
genomic: TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGTAGgtaagtttgg ... gttgaatcagTGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
EST: gi|32270623|gb|CD719782.1|CD719782
EST:     TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGAAG                         TGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
genomic: TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGTAGgtaagtttgg ... gttgaatcagTGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
EST: gi|30326328|gb|CD009590.1|CD009590
EST:     TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGAAG                         TGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
genomic: TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGTAGgtaagtttgg ... gttgaatcagTGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
EST: gi|32249128|gb|CD714947.1|CD714947
EST:     TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGAAG                         TGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
genomic: TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGTAGgtaagtttgg ... gttgaatcagTGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
EST: gi|30327945|gb|CD011207.1|CD011207
EST:     TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGAAG                         TGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
genomic: TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGTAGgtaagtttgg ... gttgaatcagTGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
EST: gi|32272513|gb|CD721672.1|CD721672
EST:     TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGAAG                         TGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC
genomic: TCTTCCAAAACCCAGGTTTTCTTCCAAGGCATTTCCCCAGATCACAGTAGgtaagtttgg ... gttgaatcagTGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattcttctaaatatgattattactcaaatatttaactacataagttgaatcagTGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGCAGTGCAAGGCACAAAGTACCCAGGAGGATCAAATCCAGCACAAGTTGTT
         taaatatgattattac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttggtttacatactaagatgtacatatatcaaaatgaaaccccatatcaacaatcattaattcttctaaatatgattattactcaaatatttaactacataagttgaatcagTGGAAGTGATTGGAATGAGCCAAAGGCGAGCTGCAGAGGACAAACAAGAGCAGTGCAAGGCACAAAGTACCCAGGAGGATCAAATCCAGCACAAGTTGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT