Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gactggtgagcagttcaatttggtgctgacatttgtctgatttctgaattgattattttgatttgatgtacacgtttctgattttatttctaatttccagTACCGTTGAAGACGATATAATTGTGGATCAAGTAGATTCGCCCGAGATAATTGATGATTTTGAACTTGGGCAAGATGAATCTACTGATATCAAAGATAAA

Basic information

species Vitis vinifera
transcript Vv12s0035g00640.t01
intron # 1
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|110730895|gb|EE108499.1|EE108499
EST:     CTTCTCTCTCACCTCCCCCTCAAGCCGTCTCTCAAGATGACGATGATTGG                         TACCGTTGAAGATGATATAATTGTGGATCAAGTGGATTCGCCCGAGATAAT
genomic: CTTCTCTCTCACCTCCCCCTCAAGCCGTCTCTCAAGATGACGATGATTGGgtatattctc ... taatttccagTACCGTTGAAGACGATATAATTGTGGATCAAGTAGATTCGCCCGAGATAAT
EST: gi|110731088|gb|EE108908.1|EE108908
EST:     CTTCTCTCTCACCTTCCCCTCAAGCCGTCTCTCAAGATGACGATGATTGG                         TACCGTTGAAGATGATATAATTGTGGATCAAGTGGATTCGCCCGAGATAAT
genomic: CTTCTCTCTCACCTCCCCCTCAAGCCGTCTCTCAAGATGACGATGATTGGgtatattctc ... taatttccagTACCGTTGAAGACGATATAATTGTGGATCAAGTAGATTCGCCCGAGATAAT
EST: gi|110712069|gb|EE089270.1|EE089270
EST:     CTTCTCTCTCACCTTCCCCTCAAGCCGTCTCTCAAGATGACGATGATTGG                         TACCGTTGAAGATGATATAATTGCGGATCAAGTGGATTCGCCCGAGATAAT
genomic: CTTCTCTCTCACCTCCCCCTCAAGCCGTCTCTCAAGATGACGATGATTGGgtatattctc ... taatttccagTACCGTTGAAGACGATATAATTGTGGATCAAGTAGATTCGCCCGAGATAAT
EST: gi|110731285|gb|EE105571.1|EE105571
EST:     CTTCTCTCTCACCTTCCCCTCAAGCCGTCTCTCAAGATGACGATGATTGG                         TACCGTTGAAGATGATATAATTGTGGATCAAGTGGATTCGCCCGAGATAAT
genomic: CTTCTCTCTCACCTCCCCCTCAAGCCGTCTCTCAAGATGACGATGATTGGgtatattctc ... taatttccagTACCGTTGAAGACGATATAATTGTGGATCAAGTAGATTCGCCCGAGATAAT
EST: gi|33409794|gb|CF215421.1|CF215421
EST:     CTTCTCTCTCACCTCCCCCTCAAGCCGTCTCTCAAGATGACGATGATTGG                         TACCGTTGAAGATGATATAATTGTGGATCAAGTGGATTCGCCCGAGATAAT
genomic: CTTCTCTCTCACCTCCCCCTCAAGCCGTCTCTCAAGATGACGATGATTGGgtatattctc ... taatttccagTACCGTTGAAGACGATATAATTGTGGATCAAGTAGATTCGCCCGAGATAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattgattattttgatttgatgtacacgtttctgattttatttctaatttccagTACCGTTGAAGACGATATAATTGTGGATCAAGTAGATTCGCCCGAGATAATTGATGATTTTGAACTTGGGCAAGATGAATCTACTGATATCAAAGATAAA
                                          ttctaat  putative branch site (score: 2)
                                    ttttatttct  CT-rich tract
                             tttctgattttatttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gactggtgagcagttcaatttggtgctgacatttgtctgatttctgaattgattattttgatttgatgtacacgtttctgattttatttctaatttccagTACCGTTGAAGACGATATAATTGTGGATCAAGTAGATTCGCCCGAGATAATTGATGATTTTGAACTTGGGCAAGATGAATCTACTGATATCAAAGATAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- ctggtga
- - - - - - - - - - - - -ctgacat
- - - - - - - - - - - - - - - - -tgtctga