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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatcttttgtctgtaacactcttgaaatattcttcattcatggaactgaaatatttataaatatgagcagACTATGGCATGGATTTTCGACGAGTACTCAAAATTCCATGGTCACTCACCGGCTGTAGTGACTGGAAAGCCAATA

Basic information

species Vitis vinifera
transcript Vv16s0039g02720.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0039g02720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os04g45970.1 (Oryza sativa), 3'ss of exon 3
--gttatcttttgtctgtaacactcttgaaatattcttcattcatggaactgaaatatttataaatatga-gcagACTATGGCATGGATTTTCGACGAGTACTCAAAATTCCATGGTCACTCACCGGCTGTAGTGACTGGAAAGCCAATA----
   |  |||  | ||| ||  | | ||  | || |   | |||||        |     | ||| | |||  ||||| ||||| |||||||| || |||||||| |||||||||||||| |||||||| || || ||||| |||||||||    
gtatattctgctttctctagtatttttctactacttccc-ttcatcatgtaacatcccctgtaattttgacacagACCATGGCTTGGATTTTGGATGAGTACTCGAAATTCCATGGTCATTCACCGGCAGTTGTCACTGGGAAGCCAATAGTAA

upper sequence: Vv16s0039g02720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os04g45970.2 (Oryza sativa), 3'ss of exon 3
--gttatcttttgtctgtaacactcttgaaatattcttcattcatggaactgaaatatttataaatatga-gcagACTATGGCATGGATTTTCGACGAGTACTCAAAATTCCATGGTCACTCACCGGCTGTAGTGACTGGAAAGCCAATA
   |  |||  | ||| ||  | | ||  | || |   | |||||        |     | ||| | |||  ||||| ||||| |||||||| || |||||||| |||||||||||||| |||||||| || || ||||| |||||||||
gtatattctgctttctctagtatttttctactacttccc-ttcatcatgtaacatcccctgtaattttgacacagACCATGGCTTGGATTTTGGATGAGTACTCGAAATTCCATGGTCATTCACCGGCAGTTGTCACTGGGAAGCCAATA

upper sequence: Vv16s0039g02720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g43470.1 (Oryza sativa), 3'ss of exon 3
--------------------------gttatcttttgtctgtaacactcttgaaata-ttcttcatt-catggaactgaaa----tatttataaatatgagcagACTATGGCATGGATTTTCGACGAGTACTCAAAATTCCATGGTCACTCACCGGCTGTAGTGACTGGAAAGCCAATA
                           | || | |  ||||      || |    |  |||||| || ||||   ||||||    |||||  || | | | ||||| |||||||||||  | || || |||||||| |||||||| ||||| || ||||| || || ||||||||||| 
gtgagtcatccaattccatctgccttataatttatcatctgctgtcttcatactctgcttcttctttacatgtttctgaaaattttattttcaactgtca-cagACCATGGCATGGATACTAGATGAATACTCAAAGTTCCATGGCCACTCCCCAGCTGTTGTCACGGGAAAGCCAATT

upper sequence: Vv16s0039g02720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G427097_T01 (Zea mays), 3'ss of exon 3
--------------------gttatcttttgtctgta-acactcttgaaatattcttcattcatggaactgaaatatttataaatatgagcagACTATGGCATGGATTTTCGACGAGTACTCAAAATTCCATGGTCACTCACCGGCTGTAGTGACTGGAAAGCCAATA
                    ||||| |||| | ||||  | |   |    | || ||||||  |  | ||    | | |  || | ||| ||||| |||||||||||  | || |||||||| ||||| ||||||||||| || || || || ||||| |||||||||
gtaggcctaacattgcttttgttatttttt-tttgtatgctcagctatcttgtttttcatttgt--acct----tttatgcaattgtga-cagACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATA

upper sequence: Vv16s0039g02720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G427097_T02 (Zea mays), 3'ss of exon 3
--------------------gttatcttttgtctgta-acactcttgaaatattcttcattcatggaactgaaatatttataaatatgagcagACTATGGCATGGATTTTCGACGAGTACTCAAAATTCCATGGTCACTCACCGGCTGTAGTGACTGGAAAGCCAATA-------------------------
                    ||||| |||| | ||||  | |   |    | || ||||||  |  | ||    | | |  || | ||| ||||| |||||||||||  | || |||||||| ||||| ||||||||||| || || || || ||||| |||||||||                         
gtaggcctaacattgcttttgttatttttt-tttgtatgctcagctatcttgtttttcatttgt--acct----tttatgcaattgtga-cagACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAGTAAGTGAAAAAATGTGGCAGCAAG

upper sequence: Vv16s0039g02720.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S62_236V6.1 (Physcomitrella patens), 3'ss of exon 4
-----------------------------------------------------gttatcttttgtctgtaacactcttgaaatattcttcattcatggaactgaaatatttataaatatgagcagACTATGGCATGGATTTTCGACGAGTACTCAAAATTCCATGGTCACTCACCGGCTGTAGTGACTGGAAAGCCAATA
                                                     | |   | |  ||     || |   || | |  | ||  |    || || ||  | || |   | ||  ||||||||||| |||||||| ||||||||||| ||||| |||||  |  | ||||| || || ||||| || ||  | 
gtatgttccgtatattgaagctctctcgtgttccactaacatgccgtattgctgatgcgtctcatcatgctcagtgcagagaaacccctctct----gatctcaacgactt-tgtttttgtacagACTATGGCTTGGATTTTGGACGAGTACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acactcttgaaatattcttcattcatggaactgaaatatttataaatatgagcagACTATGGCATGGATTTTCGACGAGTACTCAAAATTCCATGGTCACTCACCGGCTGTAGTGACTGGAAAGCCAATA
 ctgtaac  putative branch site (score: 3)
                            aactgaaatatttata  TA-rich tract