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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattattgcatataactaatttctgttgcacagctatcatcttttgctttgcaattctaaatacatgtcactttaccatatcacagCTCATTATACATGAAACGTAACACAGAGCATGACCCACCTTACTGGAGAGGTCCAATTTGGATGAACATGAATTACAGGATTCTTTCTGCACTCCACCAT

Basic information

species Vitis vinifera
transcript Vv01s0010g03300.t01
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GRMZM2G071675_T01 (Zea mays), 3'ss of exon 2
-----gtga-ttattgcatataact-aatttctgttgcacagctatcatcttttgctttgcaatt-ctaaat----acatgtc-actttaccatatcacagCTCATTATACATGAAACGTAACACAGAGCATGACCCACCTTACTGGAGAGGTCCAATTTGGATGAACATGAATTACAGGATTCTTTCTGCACTCCACCAT
      ||  ||||| | | ||  | ||  |   ||  | ||||||  | ||| |   | |||   ||   |    |  | || | |||  |||    ||| ||| |||| ||||| ||||| |||||||||||||| ||||| ||||||||| | |||||||| |||||||| |||| | ||||||| ||||| || || 
tcccaatgccttattac-tgtagttcaagatggtttatatagctatattatttggtcatccaacaactgggttctgaagtatctatttttacatggtccagTTCAATATATATGAAGCGTAATACAGAGCATGACCCCCCTTATTGGAGAGGTGCCATTTGGATAAACATGAACTACATGGTTCTTTCGGCACTACATCAC

upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA05G27900.1 (Glycine max), 3'ss of exon 19
-----------gtgat-tattgcat---ataactaattt--ctgttgcacagctatcatcttttgctttgcaattctaaatacatgtcactttaccatat--cacagCTCATTATACATGAAACGTAACACAGAGCATGACCCACCTTACTGGAGAGGTCCAATTTGGATGAACATGAATTACAGGATTCTTTCTGCACTCCACCAT
            || | || |||||    |||   ||||   ||    |||    ||| | | ||       ||  | ||   |    | |||  | |||  ||||| || || ||||||||||  ||||||||||||||||| || ||||||||||| ||| ||||||| |||||||||||||| |||||||| ||||||||||||
gtctgcagcctatgctctaatgcattttttaatggatttaattgagtgacattattcagcatatgtcagattatagtgaaccaaaaataatttttcttattacacagTTCCTTGTACATGAAACACAACACAGAGCATGACCCTCCATACTGGAGAGGCCCAGTTTGGATAAACATGAATTACAGAATTCTTTCAGCACTCCACCAT

upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA05G27900.2 (Glycine max), 3'ss of exon 19
-----------gtgat-tattgcatat---aactaattt--ctgttgcacagctatcatcttttgctttgcaattctaaatacatgtcactttaccatat--cacagCTCATTATACATGAAACGTAACACAGAGCATGACCCACCTTACTGGAGAGGTCCAATTTGGATGAACATGAATTACAGGATTCTTTCTGCACTCCACCAT----------
            || | || ||||| |   ||   ||||   ||    |||    ||| | | ||       ||  | ||   |    | |||  | |||  ||||| || || ||||||||||  ||||||||||||||||| || ||||||||||| ||| ||||||| |||||||||||||| |||||||| ||||||||||||          
gtctgcagcctatgctctaatgcattttttaatggatttaattgagtgacattattcagcatatgtcagattatagtgaaccaaaaataatttttcttattacacagttccttgtacatgaaacacaacacagAGCATGACCCTCCATACTGGAGAGGCCCAGTTTGGATAAACATGAATTACAGAATTCTTTCAGCACTCCACCATTACTCCAAAG

upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA08G10870.2 (Glycine max), 3'ss of exon 21
-----------------------gtg-attattgcatataactaatttctgttgcacagctatcatcttttgctttgcaattctaaatacatgtcactttaccatatcacagCTCATTATACATGAAACGTAACACAGAGCATGACCCACCTTACTGGAGAGGTCCAATTTGGATGAACATGAATTACAGGATTCTTTCTGCACTCCACCAT
                        || ||| ||  ||  |  ||||||  ||  ||    |  || | | ||  ||  | |     | | ||   | ||    ||  ||||| || || |||||||| |  ||||||||||||||||| || ||||||||||||||  ||||||| |||||||||||||| |||| ||| ||||||||||||
gtttacagcctatgctctaatgcatgcattttttaatggatttaatttgagtgacattatt--cagcctgtggattatagtgaaccaaaaataatatttc-ttattacacagTTCCTTGTACATGAAGCACAACACAGAGCATGACCCTCCATACTGGAGAGGTCCTGTTTGGATAAACATGAATTACAGAATTCCTTCCGCACTCCACCAT

upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA05G27890.1 (Glycine max), 3'ss of exon 19
----------------------gtgattattgcatataactaatttctgttg-cacagctatcatcttttgctt-tgcaattctaaatacatgtcactttaccatatcacagCTCATTATACATGAAACGTAACACAGAGCATGACCCACCTTACTGGAGAGGTCCAATTTGGATGAACATGAATTACAGGATTCTTTCTGCACTCCACCAT
                       ||  | ||  ||      ||||| ||| | |  |   | ||| | |||||| ||     | ||| |    | | |||      |||||| || || |||||||||   ||| | |||| |||    || || |||||||||| ||||||||| |||||||||||||| |||||||| || |||||||||
gtatattacaacctatgcttaaatgcatttttaatggtttgaatttgtgtggtcttattcagcatatgttgcttatggtgaaccaaaaaataattatttt------tcacagTTCCTTGTACATGAAATTCAACTCTGAGCTTGAGGGTCCATATTGGAGAGGTCAAATTTGGATAAACATGAATTACAGAATTCTTTCAGCGCTCCACCAT

upper sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: EFJ24054 (Selaginella moellendorffii), 3'ss of exon 20
gtgattattgcatataactaatttctgttgcacagctatcatcttttgctttgcaattctaaatacatgtcactttaccatatcacagCTCATTATACATGAAACGTAACACAGAGCATGACCCACCTTACTGGAGAGGTCCAATTTGGATGAACATGAATTACAGGATTCTTTCTGCACTCCACCAT
                             | |  | | ||  | |||   ||| ||   |  ||    | | ||||      |  ||||||  | || |  | ||||||||| ||||||||| | |||||||||||||| ||  | ||||| |||||||| ||     | |||||  | || ||| | 
-----------------------------gtagcgatttctacgtttttgttggaacatttcat---cgactctttcttcgtttccagCTCTATTTATAACAGACGTAACACCGAGCATGACGCTCCTTACTGGAGAGGCCCTGTATGGATCAACATGAACTATCTCGTCCTTTCATCCCTTCACTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agctatcatcttttgctttgcaattctaaatacatgtcactttaccatatcacagCTCATTATACATGAAACGTAACACAGAGCATGACCCACCTTACTGGAGAGGTCCAATTTGGATGAACATGAATTACAGGATTCTTTCTGCACTCCACCAT
                       ttctaaa  putative branch site (score: 2)
                                       ctttacc  putative PPT
                     aattctaaatacat  TA-rich tract