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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaacatgccatttttcttctttcttatgtgtttttacttattctcaatgttttcttctttttgtcatttctgatacatttaacacgaagtatatttgcagTTATCTTGGAGCACTTTGATCAGGTAGTTGGAGACTGCTTTATGGACTGTGTCAACTGTCTCATTGGCTTTTCCAATAATAAAAGTTCCCATCGCATCAG

Basic information

species Vitis vinifera
transcript Vv11s0016g00170.t01
intron # 24
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: LOC_Os07g37750.1 (Oryza sativa), 3'ss of exon 21
------gtaagaacatgccatttttcttctttcttatgtgtttttacttattctcaa--tgttttcttc--tttttgtcatttctgatacatttaacacgaagtatatttgcagTTATCTTGGAGCACTTTGATCAGGTAGTTGGAGACTGCTTTATGGACTGTGTCAACTGTCTCATTGGCTTTTCCAATAATAAAAGTTCCCATCGCATCAG
       |||    ||   |||  |    ||     ||| || ||||||  ||  ||  ||||   |||  || |  |||||  |  |  ||| ||   || || | || ||||||||||||||||| |||||||| || ||||| || ||||| |||||||| ||||||||||| ||||| ||  | ||||||||| |  | | ||| || ||
gtaagtttaaaggaatataattgctagcattagaagtgt-ttcttactttctccaaaaatgttagattccattatcatcattgttttttgattaaatg-gatgtgt-ttggcagTTATCTTGGAGCATTTTGATCAAGTTGTTGGTGATTGCTTCATGGACTGCGTCAACTGTCTTATTGGTTTCGCAAATAATAAATGCACACCTCGAATTAG

upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GRMZM2G335287_T01 (Zea mays), 3'ss of exon 22
gtaa--gaacatgccatttttcttctttcttatgtgtttttacttattctcaatgttttcttct-ttttgtcattt------ctgatacatttaacacgaagtatatttgcagTTATCTTGGAGCACTTTGATCAGGTAGTTGGAGACTGCTTTATGGACTGTGTCAACTGTCTCATTGGCTTTTCCAATAATAAAAGTTCCCATCGCATCAG
||||   |  |    || |  ||   |  | | ||   || ||  |   |  ||  |     || | |||  ||||      ||||     | ||    | |     || ||||||||||||| || |||||||| || ||||| || ||||| ||||| |||||||||||||| ||||| ||| | ||||| ||  |  | | ||| || ||
gtaaataaggaatttatatagctagctcgtaaagtacctt-acccaccttatatcctacaacctatcttgaaattttattggctgactttgtgaatgaaacggtgtcttacagTTATCTTGGAACATTTTGATCAAGTCGTTGGTGATTGCTTCATGGATTGTGTCAACTGTCTTATTGGTTTTGCAAATAACAAGTGCACTCCTCGGATTAG

upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 23
gtaagaacatgccatttttcttctttcttatgtgtttttacttattctcaatgttttcttctttttgtcatttctgatac--atttaacacgaagtatatttgcagTTATCTTGGAGCACTTTGATCAGGTAGTTGGAGACTGCTTTATGGACTGTGTCAACTGTCTCATTGGCTTTTCCAATAATAAAAGTTCCCATCGCATCAG-------------------------------------------------
                               || |   |  || | |||||| || ||    ||| ||  |     ||     | ||||     || | |||||||||||  |||| |||||||| |||||  | || |||||||| ||||| |||||||| ||||||||  | ||| ||||||| |||  |||  | || || ||                                                 
-------------------------------gtatccctgttt-tactcaattttctcactctttcgttttgataaatgtttgtgtaaccactcgtttgtttgcagttattctggaacactttgaccaggtgataggtgactgcttcatggattgtgtcaattgtctcatcagGTTTGCCAATAACAAAGCTTCAGACCGGATAAGCCTGAAAGCTATTGCCCTTCTCAGAATATGTGAGGATCGGCTTGCAGAG

upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: AT3G43300.1 (Arabidopsis thaliana), 3'ss of exon 23
gtaagaacatgccatttttcttctttcttatgtgtttttacttattctcaatgttttcttctttttgtcatttctgatac--atttaacacgaagtatatttgcagTTATCTTGGAGCACTTTGATCAGGTAGTTGGAGACTGCTTTATGGACTGTGTCAACTGTCTCATTGGCTTTTCCAATAATAAAAGTTCCCATCGCATCAG
|| | ||   | |  |     | || |   ||| |   |  || | |||||| || ||    ||| ||  |     ||     | ||||     || | |||||||||||  |||| |||||||| |||||  | || |||||||| ||||| |||||||| ||||||||  | ||| ||||||| |||  |||  | || || ||
gtgacaaacagtccatcaaactattgcacttgtatccctgttt-tactcaattttctcactctttcgttttgataaatgtttgtgtaaccactcgtttgtttgcagTTATTCTGGAACACTTTGACCAGGTGATAGGTGACTGCTTCATGGATTGTGTCAATTGTCTCATCAGGTTTGCCAATAACAAAGCTTCAGACCGGATAAG

upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: PP1S19_33V6.1 (Physcomitrella patens), 3'ss of exon 17
----------------------------gtaagaacatgccatttttcttctttc--ttatgtgtttttacttattctcaatgttttcttctttttgtcatttctgatacatttaacacgaagtatatt--tgcagTTATCTTGGAGCACTTTGATCAGGTAGTTGGAGACTGCTTTATGGACTGTGTCAACTGTCTCATTGGCTTTTCCAATAATAAAAGTTCCCATCGCATCAG
                             | | ||  ||  |    |     ||   | |||   |  |    || |   || |    | |    ||        |      || ||  |  |  |  |  ||||||| |  ||||||| || |||||||| |||||||| |||||||||||||| ||  | |||||  |||  ||| | || ||||  |        |  |  ||
gtagtgtgctgatgttacctttattattttgataatgtgaaagccgttggacttggatgatgcaatggtgaaaatgccgcatctacagtacccggtggtgaccacgtagtggttgacttggtggcttgtggtgcagTTGTGCTGGAGCATTTCGATCAGGTGGTTGGAGATTGCTTTATGGACTGCGTGCATTGTCTGGTTGCATTTGCAAACAATAGGATCAGTTCACAGACTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgttttcttctttttgtcatttctgatacatttaacacgaagtatatttgcagTTATCTTGGAGCACTTTGATCAGGTAGTTGGAGACTGCTTTATGGACTGTGTCAACTGTCTCATTGGCTTTTCCAATAATAAAAGTTCCCATCGCATCAG
                               atttaac  putative branch site (score: 3)
                           atacatttaa  TA-rich tract