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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgaatctatattgttcttccatttattaattgttggaaaatagtgtataacatgaccgatctttttcctctattaaatacaacttagTGAGAGCCAACTTTGAGTTCATTGAAAAGCTTGGAGTCGATCTATGGTGCTTCCATGACAGGGATATAGCCCCTGATGGTAAAACCCTGGAG

Basic information

species Vitis vinifera
transcript Vv11s0052g01710.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0052g01710.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os07g47290.1 (Oryza sativa), 3'ss of exon 5
--------gtaagttgaatctatattgttcttccatttattaattgttggaaaatagtgtataacatgaccgatctttttcctctattaaatacaact-tagTGAGAGCCAACTTTGAGTTCATTGAAAAGCTTGGAGTCGATCTATGGTGCTTCCATGACAGGGATATAGCCCCTGATGGTAAAACCCTGGAG
         | |  ||  |  || ||    |||  || ||||    || | |  |      |  | | | | |    ||   |||   || |   | |  |||||||||  ||||||||||||| || ||||||||||| ||    ||||||||||||||||||||||| ||||||||||| ||||| ||   |
gtatggctattacctggtttcatgtttaggttcagttcattatgaatttgcacgt------ttgcttaatcaacaacttctgtctg--aattgttattgcagTGAGAGCTCACTTTGAGTTCATGGAGAAGCTTGGAGTTGACAGGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACG

upper sequence: Vv11s0052g01710.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AC190975.3_FGT004 (Zea mays), 3'ss of exon 2
gtaagttgaatctatattgttcttccatttattaattgttggaaaatagtgtataacatgaccgatctttttcctctattaaatacaacttagTGAGAGCCAACTTTGAGTTCATTGAAAAGCTTGGAGTCGATCTATGGTGCTTCCATGACAGGGATATAGCCCCTGATGGTAAAACCCTGGAG
||| | |||     ||   | | |   | |  || |    |     | |  |||    ||  |  | |       | |||     ||    |||||||||  ||||||||||||| || ||| | ||||||||   |||||||||||||||||||||||| ||||| ||||| || || || || 
gtatgatgatcgcctaacctacctttgtgttgtagtcccagccttctgggttatgttttggtctgttt-------caattgg---cattgcagTGAGAGCTCACTTTGAGTTCATGGAGAAGTTGGGAGTCGACAAATGGTGCTTCCATGACAGGGATATTGCCCCGGATGGGAAGACACTTGAA

upper sequence: Vv11s0052g01710.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G005493_T01 (Zea mays), 3'ss of exon 5
gtaagttgaatctatattgttcttccatttattaattgttggaaaatagtgtataacatgaccgatctttttcctctattaaatacaact-tagTGAGAGCCAACTTTGAGTTCATTGAAAAGCTTGGAGTCGATCTATGGTGCTTCCATGACAGGGATATAGCCCCTGATGGTAAAACCCTGGAG
||| |  ||     ||   |   || || |  || ||   |     | |  |||    ||   || ||   | || | | ||  || | |  |||||||||  ||||||||||||| || ||||| || || ||   ||||||||||||||| |||||||| ||||||||||| ||||| || || 
gtatgaggatcacctaacctaactctatgttgtagttccagccttctgggttatgtt-tgttggaactaacttctgtttcaatcactattgcagTGAGAGCTCACTTTGAGTTCATGGAGAAGCTGGGGGTTGACAAATGGTGCTTCCATGATAGGGATATTGCCCCTGATGGGAAAACTCTCGAA

upper sequence: Vv11s0052g01710.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G081682_T02 (Zea mays), 3'ss of exon 5
-------------gtaagttgaatctatattgttcttccatttattaattgttggaaaatagtgtataacatgaccgatctttttcctctattaaata-caacttagTGAGAGCCAACTTTGAGTTCATTGAAAAGCTTGGAGTCGATCTATGGTGCTTCCATGACAGGGATATAGCCCCTGATGGTAAAACCCTGGAG
              |||  |   | | |  |||  | |||    |     |||      | || | |    ||   || ||   | || | | || |  ||    |||||||||  ||||||||||||| || ||| | ||||| ||   |||||||||||||||||||||||| ||||| ||||| || || || || 
gtatgatgattgcctaacctacctttgtgctgtagtcccagccttctgg-gttatgttttggtctgtttgttggaagaactaacttctgtttcaactggcattgcagTGAGAGCTCACTTTGAGTTCATGGAGAAGTTGGGAGTTGACAAATGGTGCTTCCATGACAGGGATATTGCCCCGGATGGGAAGACTCTTGAA

upper sequence: Vv11s0052g01710.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G313536_T01 (Zea mays), 3'ss of exon 4
-------gtaagttgaatctatattgttcttccatttattaattgttggaaaata-----gtgtataacatgaccgatctttttcctctattaaat-acaacttagTGAGAGCCAACTTTGAGTTCATTGAAAAGCTTGGAGTCGATCTATGGTGCTTCCATGACAGGGATATAGCCCCTGATGGTAAAACCCTGGAG
       |   |   || |||  ||  |  |  | |  |    |  |||   ||      || | |    ||   || ||   | || | | || | |||  | |||||||||  ||||||||||||| || ||| | |||||| |   |||||||||||||||||||||||| ||||| ||||| || || || || 
gtatgatgatcgcctaacctacctttgtgctttagtcctagccttctgggttatgttttggtctgtttgttggaagaactaacttctgtttcaactgacatttcagTGAGAGCTCACTTTGAGTTCATGGAGAAGTTGGGAGTCAACAAATGGTGCTTCCATGACAGGGATATTGCCCCGGATGGGAAGACACTTGAA

upper sequence: Vv11s0052g01710.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G335948_T01 (Zea mays), 3'ss of exon 3
-------------gtaagttgaatctatattgttcttccatttattaattgttggaaaatagtgtataacatgaccgatctttttcctctattaaat-acaacttagTGAGAGCCAACTTTGAGTTCATTGAAAAGCTTGGAGTCGATCTATGGTGCTTCCATGACAGGGATATAGCCCCTGATGGTAAAACCCTGGAG
              |||  |   | | |  | |  | |||    |     |||      | || | |    ||   || ||   | || | | || | |||    |||||||||  ||||||||||||| || ||| | |||||| |   ||||||||||||||| |||||||| ||||| ||||| || || || || 
gtatgatgatcgcctaacctacctttgtgctttagtcccagccttctgg-gttatgttttggtctgtttgttggaagaactaacttctgtttcaactgacattgcagTGAGAGCTCACTTTGAGTTCATGGAGAAGTTGGGAGTCAACAAATGGTGCTTCCATGATAGGGATATTGCCCCGGATGGGAAGACACTTGAA

upper sequence: Vv11s0052g01710.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G07380.1 (Glycine max), 3'ss of exon 5
gtaagttgaatctatattgttct-tccattta-ttaattgttggaaaatagtgtataacatgaccgatctttttcctctattaaatacaacttagTGAGAGCCAACTTTGAGTTCATTGAAAAGCTTGGAGTCGATCTATGGTGCTTCCATGACAGGGATATAGCCCCTGATGGTAAAACCCTGGAG
||| ||| | |||  | | | |  |  || || || |   |  || | | || | |  ||  |   |   || ||     |||| ||  ||  ||||||||| ||||||||||||||    || || || || ||  | ||||| ||||| ||||||||||||||||||||||| ||||| || |||
gtatgttaattcttgactctccagttgatatacttcacattcagatatttgtttgtgtcacaaaataaaattctc-----ttaattatcac--agTGAGAGCTAACTTTGAGTTCATAAGCAAACTCGGTGTTGACTTTTGGTGTTTCCACGACAGGGATATAGCCCCTGATGGAAAAACTCTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggaaaatagtgtataacatgaccgatctttttcctctattaaatacaacttagTGAGAGCCAACTTTGAGTTCATTGAAAAGCTTGGAGTCGATCTATGGTGCTTCCATGACAGGGATATAGCCCCTGATGGTAAAACCCTGGAG
            gtataac  putative branch site (score: 3)
                                      tattaaatacaactta  TA-rich tract