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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctcttccccgcctgctctctccattgtcaatctcttcaaaatggctcaaagcttactcttctttcttctttccagGATTACACTGCTAAACTCTCTGATTTCGGGCTAGCGAAGGACGGTCCAGAAGGCGACGAGACTCACGTATCAACCCGAATAATGGGCACACATGGCTATG

Basic information

species Vitis vinifera
transcript Vv04s0008g02070.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g02070.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g08170.1 (Oryza sativa), 3'ss of exon 3
----------------gtaagctcttccccgcctgctctctccattgtcaatctcttcaaaatggctcaaagcttactcttctttct----tctttccagGATTACACTGCTAAACTCTCTGATTTCGGGCTAGCGAAGGACGGTCCAGAAGGCGACGAGACTCACGTATCAACCCGAATAATGGGCACACATGGCTATG
                   || |    |      | | |||         |    |    |        ||  ||  | |  || ||    | |    |||| | ||  || || ||||| ||||||||||||||||||||||| ||||| |  |||||||| || || || || ||  | ||||||||||| || || |
tccatcaactgaatcctgcagttgcagcagaaaggttttcttacacaagtacaattctgtagcaatcttaattttgttttcgttgctgaattgtccgtagGACTTCAAAGCCAAGCTCTCAGATTTCGGGCTAGCGAAGGACGGGCCAGAGGATGACGAGACGCATGTCTCGACACGTGTCATGGGCACACAGGGATACG

upper sequence: Vv04s0008g02070.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G12710.1 (Glycine max), 3'ss of exon 3
-----------------------------gtaagctcttccccgcctgctctctccattgtcaatctcttcaaaatggctcaaagcttactcttctttcttct--ttccagGATTACACTGCTAAACTCTCTGATTTCGGGCTAGCGAAGGACGGTCCAGAAGGCGACGAGACTCACGTATCAACCCGAATAATGGGCACACATGGCTATG
                             ||    | |  |  || |  | |  |    |   || ||   ||| |  || |    | | | || |   |||    || |||||| ||| ||||||||||||||||| |||||||| ||||| || || ||||| || || || |||||| |||| || |||||||| ||||| || ||||
gtatgttctttgatctcttctgaagagtcgtgttatatctcttgcatcattttccttggggtcatatcaagaaattaacttactcttaatttttgtcatttccaaatctagGATTTCACAGCTAAACTCTCTGATTTTGGGCTAGCTAAGGATGGCCCTGAAGGGGAAGACACACACGTAACAACACGCATAATGGGAACACAAGGTTATG

upper sequence: Vv04s0008g02070.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S31_254V6.1 (Physcomitrella patens), 3'ss of exon 4
------------------gtaagctcttccccgcctgctctctccattgtcaatctcttcaaaatggc-tcaaagcttactcttctttcttcttt-ccagGATTACACTGCTAAACTCTCTGATTTCGGGCTAGCGAAGGACGGTCCAGAAGGCGACGAGACTCACGTATCAACCCGAATAATGGGCACACATGGCTATG
                  |  |  |      ||  |  ||| | | ||||      ||| |      | ||    || |  | |  |||||   |  ||||||||||| ||||| || |||||||| || |||||||| || || || ||||| ||| | |||||||||||||| ||  | ||||||||  |||||||||
aatattttgtacgcaatagagactttcgtttcgtatagtctgttccttgtatgggacttgatgtcatcctctgtcctcaaacctagttcttgggtgtcagGATTACACAGCTAAGCTATCTGATTTTGGCCTAGCGAAAGATGGGCCTGAAGGAGACAAAACTCACGTATCAACACGTGTCATGGGCACCTATGGCTATG

upper sequence: Vv04s0008g02070.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S207_2V6.1 (Physcomitrella patens), 3'ss of exon 4
--------------------gtaagctcttccccgcctgctctctccattgtcaatctcttcaaaatggctcaaagcttactcttctttcttctttccagGATTACACTGCTAAACTCTCTGATTTCGGGCTAGCGAAGGACGGTCCAGAAGGCGACGAGACTCACGTATCAACCCGAATAATGGGCACACATGGCTATG
                    ||||  |  |        | | |        |  | |||||        |||    || |  ||| ||| |  ||  ||||||||||| || || || |||||||||||||||||||| || || || ||||| ||| | |||||||| ||||| ||  | ||||||||  |||||||||
cagtaacgagttgcgtggaagtaacgttattataaagcgttattgttgcattatacctcttagtttgtcctctgtcctcagacttgtttatggttgtcagGATTACACAGCCAAGCTGTCTGATTTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccattgtcaatctcttcaaaatggctcaaagcttactcttctttcttctttccagGATTACACTGCTAAACTCTCTGATTTCGGGCTAGCGAAGGACGGTCCAGAAGGCGACGAGACTCACGTATCAACCCGAATAATGGGCACACATGGCTATG
                             agcttac  putative branch site (score: 3)
                               cttactcttctttctt  CT-rich tract
              ttcaaaat  TA-rich tract