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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtattttttctgattccatgctcaatttacattccatttatttctcgtttataactaaaccccaaacattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGTGTAATAGCCATTATCATTGTGAAG

Basic information

species Vitis vinifera
transcript Vv05s0020g00750.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g00750.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G18030.1 (Glycine max), 3'ss of exon 8
--gtgtgtattttttctgattccatgctcaatttacattccatttatttctcgtt-tataactaaac---cccaaacattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGTGTAATAGCCATTATCATTGTGAAG
     |  |||||   || ||||||||   |||||| |||| |  |      ||  |  |||||||    |     |  ||  ||||| ||||| || || ||||| |||||||| || || |||||||| ||||||||||| ||||||||  | ||||||
gttgattcattttcattgcttccatgcattatttactttccttcaaacctgtgtcatggaactaaattgtctttccctgttatcagGTAGCTACTGACAAGTGCATCATGCTTTTTCTGTTCCTTATTGTCTGTGGTGTAATTGCCATTATTGTGGTGAAG

upper sequence: Vv05s0020g00750.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G04460.1 (Glycine max), 3'ss of exon 8
-gtg-tgtattttttctgattccatgctcaatttacattccatttatttctcgtttataactaaac--cccaaacat-tttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGTGTAATAGCCATTATCATTGTGAAG
  || |  |||||   || ||||||||   |||||| ||||    |  | || |    |||| ||    |    ||| ||  ||||| ||||| || || ||||| |||||||| || || |||||||| ||||||||||| ||||||||  | ||||||
gttgcttcattttcattgcttccatgcattatttactttcctcaaacctgtcat--ggaactgaattgtctttccatgttatcagGTAGCTACTGACAAGTGCATCATGCTTTTTCTGTTCCTTATTGTCTGTGGTGTAATTGCCATTATTGTCGTGAAG

upper sequence: Vv05s0020g00750.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G17440.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgtgta-ttttttctgattccatgctcaatttacattccatttatttctcgtttataactaaaccccaa-----acattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGTGTAATAGCCATTATCATTGTGAAG
|||||||   |  | ||     ||| |  |||||   |   ||   ||  | |  | | || ||  |  |     || | || ||||||||||| |||||||||||||||   ||||| ||||| ||||| || |||||| ||||||| ||||| ||||||
gtgtgtaacctcatatggacatatg-tagatttatccttt-ttggcttgacctcaaaacctgaatgcttatgtctacttatttcagGTGGCTACCGATAAATGCATAATGGGGTTCCTGTTTCTCATTGTATGCGGTGTAGTAGCCATAATCATAGTGAAG

upper sequence: Vv05s0020g00750.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G17440.2 (Arabidopsis thaliana), 3'ss of exon 8
gtgtgtattttttctgattccatgctcaatttacattccatttatttctcgtttataactaaaccccaa-----acattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGTGTAATAGCCATTATCATTGTGAAG
  ||  |  |  | ||     ||| |  |||||   |   ||   ||  | |  | | || ||  |  |     || | || ||||||||||| |||||||||||||||   ||||| ||||| ||||| || |||||| ||||||| ||||| ||||||
--gta-acctcatatggacatatg-tagatttatccttt-ttggcttgacctcaaaacctgaatgcttatgtctacttatttcagGTGGCTACCGATAAATGCATAATGGGGTTCCTGTTTCTCATTGTATGCGGTGTAGTAGCCATAATCATAGTGAAG

upper sequence: Vv05s0020g00750.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G48240.1 (Arabidopsis thaliana), 3'ss of exon 8
-------------------gtgtgtatt-ttttctgattcc----atgctcaatttacattccatttatttctcgtttataactaaaccccaaacattttc-----cagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGTGTAATAGCCATTATCATTGTGAAG
                   |    ||   || |  ||  |     | ||| || ||   |   | |  | || |  ||     | |||| |||   |||       ||||| ||||| |||||||||||||||   ||||| ||||| ||||| |||||||| ||||| || ||||||||||||
gtttgtatgatctctcacaggacataagattctaagacactgcaaaagctaaaattgtgtctaactattatcaccgtttcctttcaacctcaattctttcttgtcacagGTAGCTACAGATAAATGCATAATGGCGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAG

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|351014847|gb|FQ438047.1|FQ438047
EST:     AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAG                         GTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT
genomic: AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAGgtgtgtattt ... cattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT
EST: gi|110701974|gb|EE080154.1|EE080154
EST:     A-TTCTCAATCAAGAAAGCCTCTCANCTGGTGAAGGAGATTGGTANGCAN                         GTGGCTACNGATAAATGCATAATGCTTTTCCTATTTC
genomic: AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAGgtgtgtattt ... cattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTC
EST: gi|110417235|gb|EC983274.1|EC983274
EST:     AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAG                         GTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTCTGTGGT
genomic: AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAGgtgtgtattt ... cattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT
EST: gi|34362779|gb|CF404364.1|CF404364
EST:     AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAG                         GTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT
genomic: AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAGgtgtgtattt ... cattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT
EST: gi|351044413|gb|FQ442944.1|FQ442944
EST:     AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAG                         GTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT
genomic: AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAGgtgtgtattt ... cattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT
EST: gi|110400763|gb|EC967341.1|EC967341
EST:     AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAG                         GTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTCTGTGGT
genomic: AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAGgtgtgtattt ... cattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT
EST: gi|110403990|gb|EC969898.1|EC969898
EST:     AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAG                         GTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT
genomic: AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAGgtgtgtattt ... cattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT
EST: gi|46919418|gb|CN548747.1|CN548747
EST:     AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAG                         GTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGTT
genomic: AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAGgtgtgtattt ... cattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT
EST: gi|351033770|gb|FQ447808.1|FQ447808
EST:     AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAG                         GTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT
genomic: AATTCTCAATCAAGAAGGCCTCTCAGCTGGTGAAGGAGATTGGTAGGCAGgtgtgtattt ... cattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaatttacattccatttatttctcgtttataactaaaccccaaacattttccagGTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGTGTAATAGCCATTATCATTGTGAAG
                               aactaaa  putative branch site (score: 2)
                                             cattttcc  putative PPT
                          tttataactaaa  TA-rich tract