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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagtatttagtttttttttttttactttggactctaaactttggtgcaattaacacctctacgattgttacagAATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAGAACGCTATCCTTAATCTTCCAGAAGATCAAGAACAAATGGTATGGTTGA

Basic information

species Vitis vinifera
transcript Vv18s0001g12420.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|71870085|gb|DT019140.1|DT019140
EST:     TTCATGACCGGCATGGGAGAACTGTTCTCATACTGAGACCAGGAAAGCAG                         AATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAG
genomic: TTCATGACCGGCATGGGAGAACTGTTCTCATACTGAGACCAGGAAAGCAGgtatagtatt ... attgttacagAATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAG
EST: gi|110417506|gb|EC983568.1|EC983568
EST:     TTCATGACCGGCATGGGAGAACTGTTCTCATCCTGAGACCAGGAAAGCAG                         AATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAG
genomic: TTCATGACCGGCATGGGAGAACTGTTCTCATACTGAGACCAGGAAAGCAGgtatagtatt ... attgttacagAATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAG
EST: gi|110422282|gb|EC988600.1|EC988600
EST:     TTCATGACCGGCATGGGAGAACTGTTCTCATCCTGAGACCAGGAAAGCAG                         AATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAG
genomic: TTCATGACCGGCATGGGAGAACTGTTCTCATACTGAGACCAGGAAAGCAGgtatagtatt ... attgttacagAATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAG
EST: gi|71866383|gb|DT015438.1|DT015438
EST:     TTCATGACCGGCATGGGAGAACTGTTCTCATACTGAGACCAGGAAAGCAG                         AATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAG
genomic: TTCATGACCGGCATGGGAGAACTGTTCTCATACTGAGACCAGGAAAGCAGgtatagtatt ... attgttacagAATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAG
EST: gi|110428482|gb|EC994956.1|EC994956
EST:     TTCATGACCGGCATGGGAGAACTGTTCTCATACTGAGACCAGGAAAGCAG                         AATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAG
genomic: TTCATGACCGGCATGGGAGAACTGTTCTCATACTGAGACCAGGAAAGCAGgtatagtatt ... attgttacagAATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttactttggactctaaactttggtgcaattaacacctctacgattgttacagAATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAGAACGCTATCCTTAATCTTCCAGAAGATCAAGAACAAATGGTATGGTTGA
                             aattaac  putative branch site (score: 2)
                taaacttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatagtatttagtttttttttttttactttggactctaaactttggtgcaattaacacctctacgattgttacagAATACAACAGCACTAGACAATCAGGTCCGTCACTTAGTATATCTCTTGGAGAACGCTATCCTTAATCTTCCAGAAGATCAAGAACAAATGGTATGGTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC