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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggcatcttctgatttcttcttatctgtctgattggcatgtattccatggtagctattggatatatatacatgtgatggtattatttgctttctttgatttcctgcagTGCACTTGGTGGCAGCCATGGTGTGCCACGGGTACATTACAAGGGCCGACAAGGTGACTACTATGTCATG

Basic information

species Vitis vinifera
transcript Vv04s0008g00160.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G25760.2 (Arabidopsis thaliana), 3'ss of exon 3
gtgaggcatcttctgatttcttcttatctgtctgattggcatgtattccatggt-agctattggatatatatacatgtgatggtattatttgctttctttgat---ttcctgcagTGCACTTGGTGGCAGCCATGGTGTGCCACGGGTACATTACAAGGGCCGACAAGGTGACTACTATGTCATG
|||||   | |  |   || |  ||  || |  ||||  ||| |  | | || | |  || |   | |||| |    |||    | || |     | | | ||   ||| | |||||||||||||||||| |||||||||||||| || ||||  ||||| || || || || |  || || |||
gtgagcgttatggtctcttgtctttggctctaggatt--catcttctgcttgttcaaatagtttgtttataaaaggatgagataactaatgatgctttatcatctgttcgtccagTGCACTTGGTGGCAGTCATGGTGTGCCACGAGTTCATTTTAAGGGTCGGCAGGGCGATTTTTACGTGATG

upper sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S360_49V6.1 (Physcomitrella patens), 3'ss of exon 4
-------------------------------gtgaggcatcttctgatttcttcttatctgtctgattggcatgtattccatggtagctattggatatatatacatgtgat--ggtattatttgct----ttctttgatt------------tcctgcagTGCACTTGGTGGCAGCCATGGTGTGCCACGGGTACATTACAAGGGCCGACAAGGTGACTACTATGTCATG
                               ||||     ||  ||   | |  | |   || | |     |  | |||     |   || |      ||  | |||||||  ||  || | | ||     ||  || ||            | || |||  | ||||||||||||||||||||    || ||| ||||||| || ||| ||||||||||||| ||||||
gtttacaagtgcgtctcgagcttgtaccattgtgatttcactcttgggatgtgataactagtgtcacaattacct-ttctgcatttcttactttcatcattcaaatgtgattagggcttgtctcctaaacctccatggttgacgcgggttctttctccagCACTCTTGGTGGCAGCCATGGTGTTGGTCGCGTATATTACAAAGGTCGAAAAGGTGACTACTACGTCATG

upper sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S210_32V6.1 (Physcomitrella patens), 3'ss of exon 2
----------------------gtgaggcatcttctgatttcttcttatctgtctgattggcatgtattccatggtagctattggatatatatacatgtgat--ggtattatttgct----ttctttgatt------------tcctgcagTGCACTTGGTGGCAGCCATGGTGTGCCACGGGTACATTACAAGGGCCGACAAGGTGACTACTATGTCATG
                      ||||      |  |||  | |  |||   || |       |  | ||| |   |   ||||      ||  | |||||||  ||  || | | ||     ||| || ||            |  | |||  | ||||||||||||||||||||    || ||| ||||||| || |||||||| |||||||| ||||||
gtatgctcgagctcgtaccattgtgatttcattcttgaaatgtgattactagtatcgcaattacct-ttctacatttcttatttttatcattcaaatgtgattagggcttgtctcctaaacctctatggttggcgcggattctttgtccagCACTCTTGGTGGCAGCCATGGTGTTGGTCGTGTATATTACAAAGGTCGACAAGGCGACTACTACGTCATG

upper sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 3'ss of exon 3
-------------------------------------gtgaggcatcttctgatttctt-cttatctgtctgattggcatgtattccatggtagctattggatatatatacatgtgatggtattatttgctttctttgat-ttcctgcagTGCACTTGGTGGCAGCCATGGTGTGCCACGGGTACATTACAAGGGCCGACAAGGTGACTACTATGTCATG
                                     | || |    | ||  | ||    ||| || ||||  |  | | | |||      |  | |  |||         | |  |    ||  | |||  |   | | || ||||||| | ||||||||||| |||||||| || || ||||||||||| || |||||||| |||||||| ||||||
gtgcgtctcaagcttgtaccattgtgatttcactcttgagatgtgattgctagtgtcgcatttacctctctgtatttcttattttcatcatcaaatgt--gattagggcttgtctcctaaccttgatggctggcgcgggtctttctgcagTACTCTTGGTGGCAGTCATGGTGTTCCTCGCGTACATTACAAAGGTCGACAAGGCGACTACTACGTCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattggatatatatacatgtgatggtattatttgctttctttgatttcctgcagTGCACTTGGTGGCAGCCATGGTGTGCCACGGGTACATTACAAGGGCCGACAAGGTGACTACTATGTCATG
                                       ctttgat  putative branch site (score: 5)
                                   ctttctttgatttcct  CT-rich tract
       atatatatacatgt  TA-rich tract