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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttctgattgcattttaggaatcttgcttctgatcattttgatctgtctaagactaatgtaaaaatacctataaaaaaaaaaagaagattaatataaaaatatctccatttcatgatcttttctaaagGTTGGTTATAAAGTTCGGCTGGAGGGAATGAAAGGGAGGGACACTCGCCTTCTTTTTTGCACTACTGGCATATTATTGAGAAGATTACTTGTTGACAGAA

Basic information

species Vitis vinifera
transcript Vv17s0000g03030.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 6
gtaagtttctgattgcattttaggaatcttgcttctgatcattttgatctgtctaagactaatgtaaaaatacctataaaaaaaaaaagaagattaatataaaaatatct-ccatttca--tgat-cttttctaaagGTTGGTTATAAAGTTCGGCTGGAGGGAATGAAAGGGAGGGACACTCGCCTTCTTTTTTGCACTACTGGCATATTATTGAGAAGATTACTTGTTGACAGAA
                                   | | |  ||  |  | | | | |||   |  |  ||   |  ||||    |  ||   ||  |  |    | |||  |||  ||   ||| ||| |||  ||||||| || |||||||||||||| || |||| ||| || || || ||||||||||| ||||| |||||  |  | ||| | |||||  | || ||||| |
-----------------------------------tcaccccttatacttttgtga-actgcagctagcatgtttgcaaaatttgat-gatcttttcttgagttttgtctatcatgacaatggatgcttatctttagGTTGGCTACAAAGTTCGGCTGGAAGGCATGAGAGGAAGAGATACGCGCCTTCTTTTCTGCACCACTGGAGTCCTGTTGCGGAGATTGTTGGTGGACAGGA

upper sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G34180.1 (Glycine max), 3'ss of exon 6
gtaagtttctgattgcattttaggaatcttgcttctgatcattttgatctgtctaagactaatgtaaaaatacctataaaaaaaaaaagaagattaatataaaaatatctccatttcatgatcttttctaaagGTTGGTTATAAAGTTCGGCTGGAGGGAATGAAAGGGAGGGACACTCGCCTTCTTTTTTGCACTACTGGCATATTATTGAGAAGATTACTTGTTGACAGAA
                          |    ||   || | |||  |  ||   | |  | | |||      | ||||   |      |   |||||  ||||  |   |    ||  |   | ||   ||||||||| || |||||||| |||||||| ||||||||||| || ||||| |||||||||||||| || ||  |||||||| | ||||| ||||| || || |
-------------------------gttagtctgtggaccttttccacttgctgatgcttgacgtactttagcttatatttat-----gttcattaacttaaa--ttattttgcttgttttcccttctgaaagGTTGGATACAAAGTTCGCCTGGAGGGTATGAAAGGGAGAGATACTCGTCTTCTTTTTTGCACCACAGGTGTATTATTGCGGAGATTGCTTGTGGATAGGA

upper sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 6
gtaagtttctgattgcattttaggaatcttgcttctgatcattttgatctgtctaagactaatgtaaaaatacctataaaaaaaaaaagaagattaatataaaaatatctccatttcatgatcttttctaaagGTTGGTTATAAAGTTCGGCTGGAGGGAATGAAAGGGAGGGACACTCGCCTTCTTTTTTGCACTACTGGCATATTATTGAGAAGATTACTTGTTGACAGAA
                            | | || ||  | |||| | || ||| |  ||    | ||      ||    | |   | |  ||||||  ||||  | | |   |||  |   | ||   ||||||||| || |||||||| |||||||| ||||||||||| || ||||| |||||||||||||| || ||  |||||||| | ||| | ||||| || || |
--------------------------gttagtttgtggaccttttcagctttctgatgct----tgaagtactttagcttatatttatgttgattaacttaaa--tttttttgtttgttttcccttctgaaagGTTGGATACAAAGTTCGTCTGGAGGGTATGAAAGGGAGAGATACTCGTCTTCTTTTTTGCACCACGGGTGTATTATTGCGGAGACTGCTTGTGGATAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaaaaaaagaagattaatataaaaatatctccatttcatgatcttttctaaagGTTGGTTATAAAGTTCGGCTGGAGGGAATGAAAGGGAGGGACACTCGCCTTCTTTTTTGCACTACTGGCATATTATTGAGAAGATTACTTGTTGACAGAA
             gattaat  putative branch site (score: 3)
                                           tcttttct  putative PPT
     aaaaagaagattaata  TA-rich tract