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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcctttattttatttccatggacatttgtgtttgaaggatgattaaccttttattgcttttgctatatacatgatacatctgttgaaccttaactcaaatattagGCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG

Basic information

species Vitis vinifera
transcript Vv00s0194g00020.t01
intron # 7
splice site 3'
intron type U12 (go to U12 genes for details)

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|110698716|gb|EE076534.1|EE076534
EST:     CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGA                         GCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
genomic: CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGAgtatccttta ... caaatattagGCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
EST: gi|110420975|gb|EC987262.1|EC987262
EST:     CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGA                         GCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
genomic: CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGAgtatccttta ... caaatattagGCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
EST: gi|110730376|gb|EE107388.1|EE107388
EST:     CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGA                         GCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
genomic: CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGAgtatccttta ... caaatattagGCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
EST: gi|22013993|gb|BQ799027.1|BQ799027
EST:     CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGA                         GCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
genomic: CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGAgtatccttta ... caaatattagGCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
EST: gi|161718037|gb|FC067579.1|FC067579
EST:     CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGA                         GCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
genomic: CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGAgtatccttta ... caaatattagGCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
EST: gi|33409317|gb|CF214944.1|CF214944
EST:     CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGA                         GCCTCTCTCTAAATATGGTGTTTCAGATGGGGAG
genomic: CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGAgtatccttta ... caaatattagGCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
EST: gi|30252933|gb|CB970484.1|CB970484
EST:     CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGA                         GCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
genomic: CAATCCAGTAACTGTTATGCAAGCCCCCAGTCAGTTAGACTAGTTCTTGAgtatccttta ... caaatattagGCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattgcttttgctatatacatgatacatctgttgaaccttaactcaaatattagGCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG
 aaccttaac  putative branch site 
                                       ttaactcaaatatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatcctttattttatttccatggacatttgtgtttgaaggatgattaaccttttattgcttttgctatatacatgatacatctgttgaaccttaactcaaatattagGCCTCTCTCTAAATATGGTGTTTCAGATGGAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA