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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggccaaacaattccagttttcctgctttacttgcgactgttattggcctttgccaatagagtaatatgagtccttggttaacagtagtttatttcttctcttacacagGATCATGATGGCTCTCACATCAAAGGACTATTGATAAATTTCATTCATTCATTCTGGCCTTCACTGCTAAAAATTCCATCTTTCTTAGTTGAGTTCATAA

Basic information

species Vitis vinifera
transcript Vv13s0064g00560.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0064g00560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os02g47150.1 (Oryza sativa), 3'ss of exon 6
gttggccaaacaattccagttttcctgctttacttgcgactgttattggcctttgccaatagagtaatatgagtccttggttaacagtagtttatttcttctcttacacagGATCATGATGGCTCTCACATCAAAGGACTATTGATAAATTTCATTCATTCATTCTGGCCTTCACTGCTAAAAATTCCATCTTTCTTAGTTGAGTTCATAA
                          | ||| ||      || ||    |  || | | |||  |||    | ||  |  ||  |  |  | || |       ||   ||||| |||||||| || ||||||||||| || ||||| || |||||||| || ||||||||||| ||  | |||||||| |||||||| |||||||| || |
--------------------------gtttttctca----tgctaaaatctatttcaactagtctaactcaactcgcttttttgc--tcatctaatagaaaattt---cagGACCATGATGGTTCCCACATCAAAGGCCTGTTGATCAACTTCATTCACTCCTTCTGGCCTTCTCTTATTAAAATTCCTTCTTTCTTGGTTGAGTTTATTA

upper sequence: Vv13s0064g00560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G021270_T02 (Zea mays), 3'ss of exon 6
gttggccaaacaattccagttttcctgctttacttgcgactgttattggcctttgccaatagagtaatatgagtccttggttaacagtagtttatttcttctcttacacagGATCATGATGGCTCTCACATCAAAGGACTATTGATAAATTTCATTCATTCATTCTGGCCTTCACTGCTAAAAATTCCATCTTTCTTAGTTGAGTTCATAA
                          | ||  |  || ||   |       | |  |||   |  ||  | |    ||| ||     |  |||    |     ||    |||||||||||||||| ||||| |||||  |  |||| || ||||| || ||||||||||| || || || ||| |||||||||| || ||||||||||| |
--------------------------gtttggcaggcaacatctccaattttatatcaactaatgaaactcaagttttgtttgctcatgctttgacaccaaaatt---tagGATCATGATGGCTCCCACATTAAAGGGTTGCTGATCAACTTCATCCACTCATTCTGGCCGTCTCTTCTTAAAGTTCCATCTTTTTTGGTTGAGTTCATTA

upper sequence: Vv13s0064g00560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G11610.1 (Glycine max), 3'ss of exon 6
gttggccaaacaattccagttttcctgctttacttgcg-actgttattggcctttgccaatagagtaatatgagtccttggttaacagtagttta-tttcttctcttacacagGATCATGATGGCTCTCACATCAAAGGACTATTGATAAATTTCATTCATTCATTCTGGCCTTCACTGCTAAAAATTCCATCTTTCTTAGTTGAGTTCATAA
                  ||     |  ||   |  || ||| || ||   ||||| | || |  |   | |        | | | | | ||| |  ||  |   |    |||||||| ||||| || ||||||||||| ||||||||||| ||||||||||| |||||||| |||||||||||| ||||||||||  | ||||| || |  |
------------------gtgggtttatttagatatcgtacttttgttttgctttgtctattgcttt-cacgga------gattataatggttcaactttctgggtggttcagGATCACGATGGTTCCCACATCAAAGGGCTATTGATAAACTTCATTCATTCGTTCTGGCCATCACTGCTAAAAGTTCCATCTTTTATGGTTGAATTTACCA

upper sequence: Vv13s0064g00560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G43170.1 (Glycine max), 3'ss of exon 6
gttggccaaacaattccagttttcctgctttacttgcg-actgttattggcctttgccaatagagtaatatgagtccttggttaacagtagttta-tttcttctcttacacagGATCATGATGGCTCTCACATCAAAGGACTATTGATAAATTTCATTCATTCATTCTGGCCTTCACTGCTAAAAATTCCATCTTTCTTAGTTGAGTTCATAA
                  ||     |  || | |  || | | || |    ||||||| || |  |  |       |   | | | | | ||| |  ||  |   |    |||||||| ||||| || ||||||||||| ||||||||||| ||||||||||| |||||||| ||||| |||||| ||||||||||  | ||||| || |  |
------------------gtgggtttatttaaatatcgtagttttgtcttgctttgcctattgcttt-tgcttccacggagattataatggttcaactttctgggtggttcagGATCACGATGGTTCCCACATCAAAGGGCTATTGATAAACTTCATTCATTCGTTCTGGCCATCACTACTAAAAGTTCCATCTTTTATGGTTGAATTTACCA

upper sequence: Vv13s0064g00560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S33_203V6.1 (Physcomitrella patens), 3'ss of exon 8
--------------------------------------------------gttggccaaacaattccagttttc--ctgctttacttgcgactgttattggcctttgccaatagagtaatatgagtccttggttaacagtagtttattt--cttctcttac-acagGATCATGATGGCTCTCACATCAAAGGACTATTGATAAATTTCATTCATTCATTCTGGCCTTCACTGCTAAAAATTCCATCTTTCTTAGTTGAGTTCATAA
                                                   || | |    |    |  |||     | || |   ||| | | | ||   |   |     | || ||||   | ||     | || | |    |  ||  ||| | | || ||||||||| ||||| ||||| ||||||||| | || || || ||||| || ||||||||||| ||  |||| ||||||||||| ||| | || |||||||| |
gtgtgtatacttcgttttgtttgagtctattagtgtctagatcatattttattagtcttgtaggcgccctttcaagttcctgtgtgtgctaatttcatatccagcttggtgtcgactaatggtaatcagctctaaaaatttacctgcttggcttttgtaaccacagGATCACGATGGGTCTCATATCAAAGGATTGTTAATCAACTTCATCCACTCATTCTGGCCCTCGTTGCTCAAAATTCCATCATTCCTCGTGGAGTTCATCA

upper sequence: Vv13s0064g00560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S109_208V6.1 (Physcomitrella patens), 3'ss of exon 8
-----------------------------------------------gttggccaaacaattcc---agttttcctgctttacttgcga----ctgttattggcctttgccaatagagtaatatgagtccttggttaacagta--gtttat----ttcttctctta----cacagGATCATGATGGCTCTCACATCAAAGGACTATTGATAAATTTCATTCATTCATTCTGGCCTTCACTGCTAAAAATTCCATCTTTCTTAGTTGAGTTCATAA
                                               || | ||||  |  ||    | | ||   | ||  |||||      ||| |       | |    |||  |||      |      |||  | |||   |  ||    |||  ||  ||    | |||||||| ||||| || |||||||||||| | ||||| || || ||||| || |||||||| |||||||| || ||||| || ||  | || |||||||| |
gtgtgccatttctgccgacattaaacatgattgtgtttcatgtaactgtggaccaagtatctctcttaatcttttggattctcttgcatgttcctgcttagattatctctttatactgtagcgctggctgccagttgtcggtacaatgcatgaccttcagcttgtatgttcgcagGATCACGATGGGTCCCACATCAAAGGATTGTTGATTAACTTTATTCACTCTTTCTGGCCGTCACTGCTCAAGATTCCTTCGTTTCTTGTGGAGTTCATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatagagtaatatgagtccttggttaacagtagtttatttcttctcttacacagGATCATGATGGCTCTCACATCAAAGGACTATTGATAAATTTCATTCATTCATTCTGGCCTTCACTGCTAAAAATTCCATCTTTCTTAGTTGAGTTCATAA
                                            ctcttac  putative branch site (score: 3)
                                  tttatttcttctctta  CT-rich tract
                               tagtttattt  TA-rich tract