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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagatggccttactaagctgtgatcctgttactagttctaagggacaacacttccacaacttatttatccaatccaattgtgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA

Basic information

species Vitis vinifera
transcript Vv05s0020g01960.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os05g05590.1 (Oryza sativa), 3'ss of exon 6
gtacagatggccttactaagctgtgatcctgttactagt-tctaagggacaacacttccacaac-ttatttatccaatccaattg--tgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA
         |  || | |     ||| ||||||  || | |||     |    |    |||| | |||  ||| ||||    ||   ||||||||||||| || || || |||||| ||||||| |||||||||||||| ||||| ||||| |||||||| |||||||| ||||| || ||||||||  |  
---------gtttttccatttaatga-cctgttgttaatgtcttgtaaaatgaaacagcacaccattaaatatgcaattttgttacttgcagGTGCTTAACCAAGACGAAACACCCCTACTCTATAGTCTGGTTTTTGGTGAAGGGGTTGTCAATGATGCTACATCTGTTGTGCTCTTTAATGCAATTGAAG

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 5
gtacagatggccttactaagctgtgatcctgttactagttctaagggacaacacttccaca-acttatttatccaatccaattgtg---cagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA
            |   | | |    ||  ||  |    |    || |||     ||| ||   || || ||   |    ||        ||||| || ||||||||||||||||||||  | ||||||||||| || || |||||||||||||| ||||| |||||  | ||||||||||| ||| | ||||
----------gttagttgaacaa--attttgccatacctcgagagagacctggattcaacgtgctaatgtaatgatcttaaccccaaaacagGTCCTCAATCAGGATGAGACACCCTTTTTGTACAGTCTGGTATTCGGTGAAGGTGTTGTGAACGATGCTACATCAATTGTGCTTTTCAACGCACTACAGA

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G063492_T01 (Zea mays), 3'ss of exon 6
--gtacagatggccttactaagctgtgatcctgttactagttctaagggacaacacttccacaacttatttatccaatccaattgtgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA
   |   | ||  |  | |  ||  |  |  | |||  |    | ||  |  |  |     ||| ||| ||    | ||      ||||||||||||| |||||||| |||||| ||||||| ||||| |||||||| ||||||||||| ||||||||||||||||| ||||| |||||||||||  | |
gtttgttgttgaac--aatttgccatttttatcttataaaaattgagataggaagc-----caatttaattggaaattcattacttgcagGTGCTTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAA

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
gtacagatggccttactaagctgtgatcctg--ttactagttctaagggacaacacttccacaacttatttatccaatccaattgtgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA-
       | |    || || |||  ||  |   |||  |    | ||  |  |  |     ||| ||| ||    | ||      |||||||| |||| |||||||| |||||| ||||||| ||||| |||||||| ||||||||||| ||||||||||||||||| ||||| |||||||||||  | | 
--gtttgttgttgaac-aatctgccattttatcttataaaaattgagataggaagc-----caatttaattggaaattcattacttgcagGTG-TTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G704237_T01 (Zea mays), 3'ss of exon 3
gtacagatggccttactaagctgtgatcctgttactagttctaagggacaacacttccacaacttatttatccaatccaattgtgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA-
     | | |   |   |   | ||    | |||     |  ||      | |      ||| ||| ||    | ||      |||||||| |||| |||||||| |||||| ||||||| ||||| |||||||| ||||||||||| ||||||||||||||||| ||||| || ||||||||  | | 
-----gtttgttgttgaagaatctgccatttttatcttataaaaattgagataggaagccaatttaattggaaattcattacttgcagGTG-TTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTTAATGCAATTGAAAA

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G027851_T03 (Zea mays), 3'ss of exon 3
---------------------------------gtacagatggccttactaagctgtg-atcctgttact--agttctaagggacaacacttccacaacttatttatcc---aatc-caattgtg-------cagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA
                                  |  | ||  | ||   || | ||  ||| ||   ||  ||    |   |    |   |    || ||||||  ||   |||| | ||| |        ||||| ||  ||||||||||||| ||||| || |||||||| || || || || || || ||||| |||||||| ||||| ||||| ||||| ||| ||||||
gttggttggttggttggttgctggaacaatctcatggacatttcatt-tgaaacagtatatcttgcctcttgaggggaacctggtccctgcttagtaaattatttgacctgtaatcaccattttactggaaacagGTCCTCCATCAGGATGAGACGCCCTTTCTGTACAGTCTCGTGTTCGGTGAGGGAGTCGTGAACGATGCCACGTCTGTTGTGCTCTTCAACGCACTCCAGA

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 4
-----------gtacagatggccttactaagctgtga---tcctgttactagttctaagggacaacacttccacaacttatttatccaatccaattgtgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA
           ||| ||||  |   || ||    | |   |  ||||   | ||       |    |||   |  | | || | |        ||  | ||||| ||||||||||||||||| |||||||| || || ||||| ||||| || || || || |||||||| || || || || || ||||| ||||| ||||
gcacgttgcaggtatagatctcaaaacaaacacatcaaatttttgttttaattttccctttattgtactgaaaataatgatgtgtatg--tggatgcttcagGTTCTTAATCAGGATGAGACTCCCTTACTATATAGCCTGGTCTTTGGGGAGGGGGTAGTAAATGATGCTACCTCCGTAGTTCTCTTCAAAGCAATTCAGA

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G38160.1 (Glycine max), 3'ss of exon 5
gtacagatggccttactaa-gctgtgatcctgt-tactagttctaagggacaacacttccacaacttatttatccaatccaattgtgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA
||| | ||| |   |  ||  |||  | ||| | |  || || |     |    |||   |    | ||   |        ||  | ||||| ||||||||||||||||| |||||||| || || || || ||||| ||||| || || |||||||| || ||  | || || ||||| ||||| ||||
gtataaatgtcaaaagaaacactgcaaacctttgttttaattttcccttattgtactgaaaatgatgatgagtatg--tggatgcttcagGTTCTTAATCAGGATGAGACTCCCTTACTATATAGCCTAGTCTTTGGGGAAGGGGTAGTAAATGATGCTACCTCCATAGTTCTCTTCAAAGCAATTCAGA

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G06370.1 (Arabidopsis thaliana), 3'ss of exon 6
gtacagatggccttactaagctgtgatcctgttactagttctaagggacaacacttccacaacttatttatccaatccaattg-tgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA
|||   |     || || |    |      | || || |            |   || | || | | ||   |  |    |   |  ||||||||||||| || ||||||||  |  | |||||||| || |||||||||||||| ||||| ||||||||||| || ||||| ||||||||||| ||||
gtaagaactttttttctgaaacatt-caaagatattattctactacattttctaatcaaaaattaacttgcacgctttgttaaatctagGTGCTTAATCAAGACGAGACACCTCTCTTGTACAGTCTTGTCTTTGGAGAAGGTGTAGTGAACGATGCCACATCGGTCGTGCTCTTCAATGCAATACAGA

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S113_117V6.1 (Physcomitrella patens), 3'ss of exon 4
-------gtac---agatggccttactaagctgtgatcctgttactagttctaagggacaacact-tccacaactta-tttatccaatccaattgtgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA
       ||||   |  |||       | |          | ||||  ||  | |         | || |    | | ||| |          | |||||||||| |||||||||||||| ||  | || |||||| |||| ||||||||||| || || |||||||| || |||||||| || ||    ||  | ||  
attcatggtacctgaattggatggttcagggaaatgattggatacttctttaatgatttttttttgtcaattgttcactttgtggtgcttgtctttgcagGTGCTCAATCAGGATGAGACCCCTCTGCTTTACAGTTTGGTGTTTGGAGAAGGAGTAGTCAATGATGCTACTTCTGTGGTTCTATTTCGGGCTGTTCAAT

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 6
-------------------------------------------------------------------------------------------------------gtaca-gatggccttactaagctgtgatc--ctgttactagttctaag-ggacaacacttccacaacttatttatccaatccaattgtgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA
                                                                                                        | || |||    |    ||||||   ||  |||||  |     |||  ||      ||    |    |      |   |    |  ||||||| ||||||||||||||  ||||  |||| |||||||| || ||||||||||| ||||| |||||||| || ||||| ||  | |||   ||  | ||||
gtgggctgcttttttcgtcactgtcattgaagcactgctgtcaagctcatgtagaaagtgtagagaagatttcaagctttcgtagattggcagagtgtctttgctccatgattttatagagaagctgcattcttctgttcttgaaagtaattgggttttcctctggcgtggttgacgacttgttttttaatgcagGTTCTTAATCAGGATGATTCACCTCTACTATACAGTCTTGTGTTTGGAGAAGGAGTTGTCAATGATGCTACCTCTGTAGTCTTATTCCGGGCTGTACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actagttctaagggacaacacttccacaacttatttatccaatccaattgtgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA
                           aacttatttat  TA-rich tract