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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcattacatgcatatgctttgaaatttagtactcaatttctttgattttcaggtgttgcctttgttaaatccaaaaatctcaagtcattgttactaatctctaaatgcaggatttactgatcaaaaaaaaaaaatttctaaatgcagGATTTGCCTCGAACATTCCCAGGTCATCCTGCTCTAGATGAGGATGGTAGAAATGCTTTGAGGCGTTTACTTACGGCATATGCTCGACACAACCCCTCTG

Basic information

species Vitis vinifera
transcript Vv13s0067g03420.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g61860.2 (Oryza sativa), 3'ss of exon 3
gtcattacatgcatatgctttgaaatttagtactcaatttctttgattttcaggtgttgcctttgttaaatccaaaaatctcaagtcattgttactaatctctaaatgcaggatttactgatcaaaaaaaaaaaatttctaaatgcagGATTTGCCTCGAACATTCCCAGGTCATCCTGCTCTAGATGAGGATGGTAGAAATGCTTTGAGGCGTTTACTTACGGCATATGCTCGACACAACCCCTCTG
||   |  ||   |    | | |   || | | | || |   |  ||  |  |||| |     |  || ||     | ||    |  |  |    |||||| |   |   || | |  |                           ||||||||||| |||| |||||||||||||| || |||||||||||||| ||||||||||| || || || || || || |||||  |||| ||||| || |
gtagatggataatttaattgttattattggaatttaactctctccatgctatggtgattttactaatatatttgggagtcctgcgctaa-gaggttaatctgttgctttgggttctttt--------------------------tagGATTTGCCTAGAACGTTCCCAGGTCATCCCGCACTAGATGAGGATGGCAGAAATGCTTTAAGACGCTTGCTCACAGCTTATGCGAGACATAACCCATCAG

upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g38950.2 (Oryza sativa), 3'ss of exon 4
gtcattacatgcatatgctttgaaatttagtactcaatttctttgattttcaggtgttgcctttgttaaatccaaaaatctcaagtcattgttactaatctctaaatgcaggatttactgatcaa--aaaaaaaaaatttctaaa-----tgcagGATTTGCCTCGAACATTCCCAGGTCATCCTGCTCTAGATGAGGATGGTAGAAATGCTTTGAGGCGTTTACTTACGGCATATGCTCGACACAACCCCTCTG
          | |  | |  |||     | |   |  ||| ||| | | | |   | |   ||| ||  |  | |  || |    |  || ||     | | ||  || |  || |    |  |     |      ||||||        | ||||| |||||| |||| || ||||||||||||||| |||| |||||||| |||||||||||||| ||||| |||   || |||||| ||||||| ||  | |
----------gtaggt-cactgagtccaaatttccttttttttttaatataaaaagctagttttattggaggctaggattt----ttcttatttagcgtttttatctggaaaatctgacaagaagccgtatctgccatttctgggctccttacagGACTTGCCTAGAACTTTTCCAGGTCATCCTGCTTTAGACGAGGATGGAAGAAATGCTTTGAGACGTTTGCTTCTAGCTTATGCTAGACACAATCCAGCAG

upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G096470_T01 (Zea mays), 3'ss of exon 4
gtcattacatgcatatgctttgaaatttagtactcaatttctttgattttcaggtgttgcctttgttaaatccaaaaatctcaagtcattgtt--actaatctctaaatgcaggatttactgatcaaaaaaaaaaaatttctaaatgcagGATTTGCCTCGAACATTCCCAGGTCATCCTGCTCTAGATGAGGATGGTAGAAATGCTTTGAGGCGTTTACTTACGGCATATGCTCGACACAACCCCTCTG
                                                                           | || |||  | ||| ||  ||     |||  || ||   |||  ||||   |      |  ||   |  |  ||||||||||| ||||||| ||||| || ||||| |||||||||||||| |||||||| || ||||| || || || || |||||||||||||| ||  | |
-------------------------------------------------------------------------gtatatatcattttattttttaaccgggttctgtattca---tttgttgatgccatttcttactttggaacttttagGATTTGCCTAGAACATTTCCAGGACACCCTGCACTAGATGAGGATGGCAGAAATGCCTTAAGGCGCTTGCTCACAGCTTATGCTCGACACAATCCACCAG

upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G051050_T01 (Zea mays), 3'ss of exon 4
gtcattacatgcatatgctttgaaatttagtactcaatttctttgattttcaggtgttgcctttgttaaatccaaaaatctcaagtcattgttactaatctctaaatgcaggatttactgatcaaaaaaaaaaaatttctaaatgcagGATTTGCCTCGAACATTCCCAGGTCATCCTGCTCTAGATGAGGATGGTAGAAATGCTTTGAGGCGTTTACTTACGGCATATGCTCGACACAACCCCTCTG
                             |||     ||   |  ||||||| | |    |    |  | |      ||   ||   ||   | ||   ||  |||     |  | |  ||    || |   |  || |   ||  ||||||||||  |||| || || |||||||||||| ||||||||||||| |||||||||||||| || || ||||  || |||||   ||||||||| || |
-----------------------------gtagctgtttatgtacattttcacggggaagcaccttgtattttttggat---aaaatat-actgctgtgctggaaa-----gtctaatagactccaatatgtaccttccctcat--agGATTTGCCCAGAACTTTTCCTGGTCATCCTGCTTTAGATGAGGATGGAAGAAATGCTTTGAGACGCTTGCTTATAGCTTATGCGAAACACAACCCATCAG

upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G094951_T01 (Zea mays), 3'ss of exon 4
gtcattacatgcatatgctttgaaatttagtactcaatttctttgattttcaggtgttgcctttgttaaatccaaaaatctcaagtcattgttactaatctctaaatgcaggatttactgatcaaaaaaaaaaaatttctaa--atgcagGATTTGCCTCGAACATTCCCAGGTCATCCTGCTCTAGATGAGGATGGTAGAAATGCTTTGAGGCGTTTACTTACGGCATATGCTCGACACAACCCCTCTG
                                                    |  | ||  | ||   | |   |     | |  |  |  ||  |       | || | |  | ||||||      || |   || |  |    |  |||| |||||  |||| || || |||||||||||| ||||||||||||| |||||||||||||| || || ||||  || |||||   |||||| || || |
----------------------------------------------------gtagctgtttatggacattttcacgggattatcttgtattttttcgataaaatatactgc-tgtactgagagtccaatatgcatcttgatccttatagGACTTGCCCAGAACTTTTCCTGGTCATCCTGCTTTAGATGAGGATGGAAGAAATGCTTTGAGACGCTTGCTTATAGCTTATGCGAAACACAATCCATCAG

upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G38810.1 (Glycine max), 3'ss of exon 4
gtcattacatgcatatgctttgaaatttagtactcaatttctttgattttcaggtgttgcctttgttaaatccaaaaatctcaagtcattgttactaatctctaaatgcaggatttactgatcaaaaaaaaaaaatttctaa---atgcagGATTTGCCTCGAACATTCCCAGGTCATCCTGCTCTAGATGAGGATGGTAGAAATGCTTTGAGGCGTTTACTTACGGCATATGCTCGACACAACCCCTCTG
                                       | | || |||| |  | |  || || ||      || | | | |  | |||| ||  | ||| ||||   ||  | | || |  |    |  |  ||| ||       ||||||| ||||||||||||| || |||||||||||||| || ||||||||||||||||||||||| || |||||||| |||||||||||||| |||||||| |
--------------------------------------gtatatgcttttgatatttcacccttattgttcttaatactgtgatattattggtatgactctttaaaca-agtttcttcttagtagtccattatcattgcttgtttgcgcagGATCTGCCTCGAACATTTCCTGGTCATCCTGCTCTGGACGAGGATGGTAGAAATGCTTTGAGACGATTACTTACTGCATATGCTCGACATAACCCCTCAG

upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G44110.1 (Glycine max), 3'ss of exon 4
gtcattacatgcatatgctttgaaatttagtactcaatttctttgattttcaggtgttgcctttgttaaatccaaaaatctcaagtcattgttactaatctctaaatgcaggatttactgatcaaaaaaaaaaaatttctaa---atgcagGATTTGCCTCGAACATTCCCAGGTCATCCTGCTCTAGATGAGGATGGTAGAAATGCTTTGAGGCGTTTACTTACGGCATATGCTCGACACAACCCCTCTG
                                       | |||| |||| |  | |   | || ||      || | | | |  | |||| ||  |  || ||||   ||  | | || |  |    |  |  ||| ||      |||||||| ||||||||||||| || |||||||||||| | || ||||||||||||||||||||||| || |||||||| |||||||||||||| |||||||| |
--------------------------------------gtatttgcttttgatatttcatccttattgttcttaatactgtgatattattggtatgacactttaaaca-agtttcttcttagtagtctattatcattgcttgtttgtgcagGATCTGCCTCGAACATTTCCTGGTCATCCTGCTTTGGACGAGGATGGTAGAAATGCTTTGAGACGATTACTTACTGCATATGCTCGACATAACCCCTCAG

upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G55020.1 (Arabidopsis thaliana), 3'ss of exon 4
gtcattacatgcatatgctttgaaatttagtactcaatttctttgattttcaggtgttgcctttgttaaatccaaaaatctcaagtcattgttactaatctctaaatgcaggatttactgatcaaaaaaaaaaaatttctaaatgcagGATTTGCCTCGAACATTCCCAGGTCATCCTGCTCTAGATGAGGATGGTAGAAATGCTTTGAGGCGTTTACTTACGGCATATGCTCGACACAACCCCTCTG
                           ||||||||||  | | |     ||||   |  || |   ||  |  |   ||     ||   |  | || |  |  |    |||||||       |             ||  || | ||||| || ||||| ||||| || |||||||||||||||||||| ||||||||||||||| |  ||||||| ||||| || |||||| | || || || ||||
--------------------------gtagtactcaaaatttat-----tcagccttgaccctctctatgt--agtgatgcagcgtggcttatgctgaagttgat---caggattcttatgccgttgcttg-----tttaaagtacagGACTTACCTCGGACATTTCCTGGTCATCCTGCTCTAGATGATGATGGTAGAAATGCTCTACGGCGTTTGCTTACTGCTTATGCTAGGCATAATCCTTCTG

upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G39280.1 (Arabidopsis thaliana), 3'ss of exon 4
gtcattacatgcatatgctttgaaatttagtactcaatttctttgattttcaggtgttgcctttgttaaatccaaaaatctcaagtcattgttactaatctctaaatgcaggatttactgatcaaaaaaaaaaaatttctaaatgcagGATTTGCCTCGAACATTCCCAGGTCATCCTGCTCTAGATGAGGATGGTAGAAATGCTTTGAGGCGTTTACTTACGGCATATGCTCGACACAACCCCTCTG
|| |  |  || | ||   |||  ||  || |      || | | | |      || |||  |  |  | |||     | |  | || | || | |  ||||          |  |  || | |            ||  || | |||||||| || || ||||| |||||||||||||| |||||||| |||   ||||||||| ||||||| || || || || |||||  | || || |||||||
gttagcaactgtacattacttggcatccagca------ttttctaact----aatggtgcagtactggactcc-----tgttga-tcttggtcatttttctc----------agctgttgctta------------tttcaattacagGATTTACCCCGGACATTTCCAGGTCATCCTGCCCTAGATGATGATTTCAGAAATGCTCTGAGGCGATTGCTAACTGCTTATGCCAGGCATAATCCCTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actaatctctaaatgcaggatttactgatcaaaaaaaaaaaatttctaaatgcagGATTTGCCTCGAACATTCCCAGGTCATCCTGCTCTAGATGAGGATGGTAGAAATGCTTTGAGGCGTTTACTTACGGCATATGCTCGACACAACCCCTCTG
                                          tttct  CT-rich tract
                   atttactgatcaaaaa  TA-rich tract