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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgccagtagatagatttattttatgtagaaataagctaactggcattaacttgattttactgcactgatgaaaaatgatctacaaaccatgcattgtagcctcttgctgaatgatctgcaatttaatcatctgttgcttcaaaattgtgattctgaccaaaaatcctgtttccagATATGATTCCTCGAAGACATTTTCACAAAATGTTGAATTGACAGATCCAATCGTTTCTCGGTTTGATGTCCTCTGTGTTGTCAAG

Basic information

species Vitis vinifera
transcript Vv01s0150g00390.t01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os11g29380.1 (Oryza sativa), 3'ss of exon 12
gtatgccagtagatagatttattttatgtagaaataagctaactggcattaacttgattttactgcactgatgaaaaatgatctacaaaccatgcattgtagcct-cttgctgaatgatctgcaatttaatcatctgttgcttcaaaattgtgattctgaccaaaaatcctgtttccagATATGATTCCTCGAAGACATTTTCACAAAATGTTGAATTGACAGATCCAATCGTTTCTCGGTTTGATGTCCTCTGTGTTGTCAAG
                                                                                             |   |||   || |||||| |  ||| |    || || ||  ||||  || |  | | | | |       |  ||  | || | ||||||||||| |||||||||||  | || ||||||||| |||| ||||||||  |||| || ||||||||||| |||||||| |||
---------------------------------------------------------------------------------------------gtgatgtgatctacttgctcag-gatgtt---ttcaaacaattgtt--ttgagcaatat-acttaattttatcatgttattgc-agATATGATTCATCGAAGACATTCACCCAGAATGTTGAACTGACGGATCCAATTATTTCACGTTTTGATGTCCTTTGTGTTGTGAAG

upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA17G03920.1 (Glycine max), 3'ss of exon 11
gtatgccagtagatagatttat-tttatgtagaaataagct---aactggcattaac--ttgattttactgcactgatgaaaaatgatctacaaaccatgcattgtagcctcttgctgaatgatctgcaattt-aatcatctgtt---gcttcaaaattgtgattctgaccaaaaatcctgtt----tccagATATGATTCCTCGAAGACATTTTCACAAAATGTTGAATTGACAGATCCAATCGTTTCTCGGTTTGATGTCCTCTGTGTTGTCAAG
||| || | ||   |   ||   | ||| | |||    |||   |  |||||||     |   | |  | ||   |||   || ||   |||| |   || |   ||    | ||   | |||| |    |||  ||| | | ||   || |  ||  | |  |  | |   ||  |    ||    | ||||||||||||||| || ||||| || ||||||||||||||||||||||||||  ||||||| |||||| ||||||||||||| |||
gtaagcaaatatgcaaggttgcatgtatctggaatctggctgcaagttggcattgttcatcagtgtcccagctaagatttcaactgtcatacacat--tgaaagatattaccatgagtattgatatatggttttgatccttttttcaagcatttaagctttactcttaaattaacttttctttgacttgcagATATGATTCCTCAAAAACATTCTCTCAAAATGTTGAATTGACAGATCCAATTATTTCTCGTTTTGATATCCTCTGTGTTGTGAAG

upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 11
gtatgccagtagatagatttat-tttatgtagaaataagctaactggcattaacttgattttactgcactgatgaaaaatgatctacaa-accatgcattgta-gcctcttgctgaatgatctgcaattt--aatcatctgtt--gcttcaaaattgtgattctgaccaaaaatcct------gtttccagATATGATTCCTCGAAGACATTTTCACAAAATGTTGAATTGACAGATCCAATCGTTTCTCGGTTTGATGTCCTCTGTGTTGTCAAG
||| || | ||  ||   ||   | ||| | |    ||| |  |     ||| |    |   |    |    | || | | ||  |||     |   |||| | |     ||   | |||| |    |||  |  ||| | |   || || ||  | |  |  | |    || |  |        || ||||||||||||||| || ||||| || ||||||||||||||||||||||||||  ||||||| |||||  |||||||||| || |||
gtaagcaaatatgtaaggttgcatgtatctggctgcaagttggcactgtttatcagtgtcccagctaagatttcaacagtcatacacattgaaagatattggatgtactatgagtattgatttatggttttgatccatttttctagcatctaagctttactcttaaatttaactttttcttggacttgcagATATGATTCCTCAAAAACATTCTCTCAAAATGTTGAATTGACAGATCCAATTATTTCTCGTTTTGACATCCTCTGTGTAGTGAAG

upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT1G44900.2 (Arabidopsis thaliana), 3'ss of exon 10
gtatgccagtagatagatttattttatgtagaaataagctaactggcattaacttgattttactgcactgatgaaaaatgatctacaaaccatgcattgtagcctcttgctgaatgatctgcaatttaatcatctgttgcttcaaaattgtgattctgaccaaaaatcctgtttccagATATGATTCCTCGAAGACATTTTCACAAAATGTTGAATTGACAGATCCAATCGTTTCTCGGTTTGATGTCCTCTGTGTTGTCAAG
                                                                                      || | |   | |   |||  |   |||     ||  |||||     | || |  | | || ||||  || ||||     ||      | ||| |||||||| |||||  ||||| |||||||||| || ||||||||||| ||| ||||||| |||||| || | ||||||||||||
------------------------------------------------------------------------------------gtaagctagaaactaatgcccttcattga----cctaaaatttgtaattttgatcttgctaatttgt--ttgtgac-----attgcaacttcagGTATGATTCATCGAAATCATTTGCACAAAATGTCGAGTTGACAGATCCGATCCTTTCTCGTTTTGATATCTTGTGTGTTGTCAAG

upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S28_266V6.1 (Physcomitrella patens), 3'ss of exon 11
gtatgccagtagatagatttattttatgtagaaataagctaactggcattaacttgattttactgcactgatgaaaaatgatctacaaaccatgcattgtagcctcttgctgaatgatctgcaatttaatcatctgttgcttcaaaattgtga-ttctgaccaaaaatcctgtttccagATATGATTCCTCGAAGACATTTTCACAAAATGTTGAATTGACAGATCCAATCGTTTCTCGGTTTGATGTCCTCTGTGTTGTCAAG
                                                                                 | |||  |      | |||||||  |  |   |  |  || |      || |        |  |  |  ||  |||||||      |  |  |  ||||||||| ||||| ||||| ||| | |||||||| ||  | || ||||| ||  ||||||| ||||||||||||||||| || |||
-------------------------------------------------------------------------------agtttacttagagattactgtagccgttatccttacaagttgaatgaatttcctgaacaaagtatatgtaatgtcttctgactttctcttatcgtaacagATATGACTCCTCCAAGACCTTTGCGCAAAATGTGGAGCTCACTGATCCTATTCTTTCTCGATTTGATGTCCTCTGTGTGGTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttaatcatctgttgcttcaaaattgtgattctgaccaaaaatcctgtttccagATATGATTCCTCGAAGACATTTTCACAAAATGTTGAATTGACAGATCCAATCGTTTCTCGGTTTGATGTCCTCTGTGTTGTCAAG
                              ttctgac  putative branch site (score: 2)
                                           tcctgtttcc  putative PPT
                 ttcaaaatt  TA-rich tract