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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttattcatacatgacttttaatttctccagtcttggcatggtaatttcatttacatctaaggcatctgcttgcagTCCGGTCAGCAAAATTTATAGCTCGTAAGCAGTGGGTGGTTGCTGGAGCTGATGACATGTTTATCCGTGTATACAATTACAATACTATGGATAAGGTTAC

Basic information

species Vitis vinifera
transcript Vv11s0016g04180.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 3'ss of exon 5
gtatgttattcatacatgacttttaatttctccagtcttggcatggtaatttcatttacatctaaggcatctgc-ttgcagTCCGGTCAGCAAAATTTATAGCTCGTAAGCAGTGGGTGGTTGCTGGAGCTGATGACATGTTTATCCGTGTATACAATTACAATACTATGGATAAGGTTAC
||||| | |||  || | |    | | ||||      |||  ||   | | |   | | ||   |  ||||  | || |||| |||||| | ||||||||  | || || || ||||| |||||||| || || || ||||| || ||||| |||||||||||||| ||||||||||| | 
gtatgct-ttcccacctcatcgcttacttctgt----ttgatatacca-tcttgctaatat---aatcatccccatttcagTTCGGTCATCTAAATTTATCACACGGAAACAATGGGTAGTTGCTGGTGCCGACGATATGTTCATACGTGTGTACAATTACAATACGATGGATAAGGTCAA

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 6
------gtatgttattcatacatgacttttaatttctccagtcttg-gcatg-----gtaattt----catttacatctaaggcatc----tgcttgcagTCCGGTCAGCAAAATTTATAGCTCGTAAGCAGTGGGTGGTTGCTGGAGCTGATGACATGTTTATCCGTGTATACAATTACAATACTATGGATAAGGTTAC
        |    | ||| ||| | |  ||| | ||| |||| ||  | |||     ||  |||    || |||     | |  | |    |  ||||||| || || || |||||||| || |  ||||| ||||| |||||||| || ||||||||||| |||||||| || || || ||||| ||||||||||| | 
tgagtctaagaagactcaaacaagcccattactgtctacagttttctgtatgcatttgtgtttttgtgcaattatgctcatgtaaccatgttaattgcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 5
----------------------------------------------------------------------gtatgttattcat-acatgacttttaatttctccagtcttgg--ca-tggtaatttcatttacatctaaggcatctgcttgcagTCCGGTCAGCAAAATTTATAGCTCGTAAGCAGTGGGTGGTTGCTGGAGCTGATGACATGTTTATCCGTGTATACAATTACAATACTATGGATAAGGTTAC
                                                                        |   | ||| |   ||   |  | ||||||    |    |  || |||   | | ||  |  | ||   |||    |||||||  | || || || ||||| || || || |||||||| ||||||||||| ||||| ||||||||||||||||| |||||||| || |||||||| || | 
gtacttgaagacgtgaaccttttttggtccatttgtttgtatatctacctcttgatgcatttgcttgaagacacacttttctttgtatatttcatgatttcttacttagaagatcactggagctcttatacaagtatacaacatgattttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATCCGTGTATATAATTACAACACAATGGATAAAGTCAA

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 5
----------------------------------------------------------gtatg-ttattcatacatgacttttaatttctccagtcttggca-tggtaatttcattta----catctaaggcatctgcttgcagTCCGGTCAGCAAAATTTATAGCTCGTAAGCAGTGGGTGGTTGCTGGAGCTGATGACATGTTTATCCGTGTATACAATTACAATACTATGGATAAGGTTAC
                                                           | || ||    | || |  ||||  || | ||  |  ||   | |   ||   || | |    | | ||   |||    |||||||  | || || || ||||| || || || |||||||| ||||||||||| ||||| |||||||| |||||||| |||||||| || |||||||| || | 
gtacatgaagtcatgaaccttttctggtccatttgtttgtctatatatctcttgatgcatttgcttgaagacacttttctttgtatatttcatgatttcttacttagaagaccactgaagctcttatacaacatgattttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatgttattcatacatgacttttaatttctccagtcttggcatggtaatttcatttacatctaaggcatctgcttgcagTCCGGTCAGCAAAATTTATAGCTCGTAAGCAGTGGGTGGTTGCTGGAGCTGATGACATGTTTATCCGTGTATACAATTACAATACTATGGATAAGGTTAC
||||| |||  |  |||  | ||     |    | ||||       | ||||  |  |  |||            |||||| ||||||||||| || || || || ||||||||||| || ||||||||||||||||||||||| ||||| ||||| ||||| |||||||||||| | | 
gtatgatatata-gcatctcattgttccttcttattctttcgcacatcatttgttgaatctctgtcctggtgttgtgcagTTCGGTCAGCAAAGTTCATTGCACGGAAGCAGTGGGTTGTAGCTGGAGCTGATGACATGTTTATTCGTGTCTACAACTACAACACTATGGATAAGATCAA

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 5
-------------------------------gtatgttattcatacatgacttttaatttct-----ccagtcttggcatggtaatttcatttacatc--taaggcatctgcttgcagTCCGGTCAGCAAAATTTATAGCTCGTAAGCAGTGGGTGGTTGCTGGAGCTGATGACATGTTTATCCGTGTATACAATTACAATACTATGGATAAGGTTAC
                                ||| || ||||    |   || ||  | ||     |  || |     | || | ||  | | | |   ||    ||    ||||||| |||||||| || ||| |||| || ||||| ||||| || || ||||||||||| |||| ||||||||||||||||||||| || ||||| ||||||| 
gtatacggcttttgttcttttgtgtcttttgttatattgttcaagtttttgttgtatgtactaagtactcgtgtctagtttgttacttattctgcttttttatattatgactttgcagTTCGGTCAGCCAAGTTTGTAGCACGAAAGCAATGGGTTGTCGCAGGAGCTGATGATATGTATATCCGTGTATACAATTACAACACCATGGACAAGGTTAA

upper sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
-------------------------gtatgttattcatacatgacttttaatttctcca----gtcttg----gcatggtaatttcatttacatctaaggcatctgcttgcagTCCGGTCAGCAAAATTTATAGCTCGTAAGCAGTGGGTGGTTGCTGGAGCTGATGACATGTTTATCCGTGTATACAATTACAATACTATGGATAAGGTTAC
                           || | |||  || |    ||| | || ||  |    | ||||    |  ||    | | | | | || ||    ||    |||||||  |||| || || |||||  | || ||||| ||||| || |||||||| ||||| ||||  ||||||||||||||||||||||| ||||| ||||| | 
gtataacaagtttatgagcatcttctgatttcattgttatagatttttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttata-tatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttctccagtcttggcatggtaatttcatttacatctaaggcatctgcttgcagTCCGGTCAGCAAAATTTATAGCTCGTAAGCAGTGGGTGGTTGCTGGAGCTGATGACATGTTTATCCGTGTATACAATTACAATACTATGGATAAGGTTAC
 ttttaat  putative branch site (score: 3)
                                            tctgctt  putative PPT
                     taatttcatttacat  TA-rich tract