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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaccgaccccaattaatctgtgagtggcttgactggtttgataatagcaatcggttgttaacttccaaaaaaacattttttccccaagGTATGTTGAAAAGACTGGGCAGAGAGCTGTGTATACCACTGGTAAAGGTGCTTCCGCTGTGGGTCTCACAGCATCAGTACACAAGGATCCTGTCACACGC

Basic information

species Vitis vinifera
transcript Vv01s0150g00390.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os11g29380.1 (Oryza sativa), 3'ss of exon 10
gtaag--accgacc-ccaattaatctgtgagtggcttgactggtttgataatagcaatcggttgttaacttccaaaaaaacattttttccccaagGTATGTTGAAAAGACTGGGCAGAGAGCTGTGTATACCACTGGTAAAGGTGCTTCCGCTGTGGGTCTCACAGCATCAGTACACAAGGATCCTGTCACACGC
|||||  |  | |   || ||      |   |   || | || |    |||   ||||   |  ||| ||   |||  |||    | |     ||||||||||| || ||||| || ||||| ||||| || ||||| ||||| ||||| ||||| || ||||| ||| |||| ||||||||||| || ||||| 
gtaaggaataggcaatcagtttcatcatctctctttttattgctccattaact-caatatttcattatctaaaaaattaactcactgttttgtagGTATGTTGAGAAAACTGGACACAGAGCAGTGTACACAACTGGAAAAGGAGCTTCTGCTGTTGGACTCACCGCAGCAGTTCACAAGGATCCAGTAACACGG

upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 9
gtaagaccgaccccaattaatctgtgagtggcttgactggtttgataatagcaatcggttgttaacttccaaaaaaacattttttccccaagGTATGTTGAAAAGACTGGGCAGAGAGCTGTGTATACCACTGGTAAAGGTGCTTCCGCTGTGGGTCTCACAGCATCAGTACACAAGGATCCTGTCACACGC
|||  |    | | | || || | ||      |||| |   || ||| |||  ||   |   | |     | |     | || | |  |||||||||||||||| ||||| ||||||||||| || || ||||||||||| ||||| || |||||||| || ||  | || || |||||||| |||||| | 
gtagaattttctcaattttattt-tg------ttga-tatctttatactagtgattaataaattaacaaaatatttcaaattctgctgcaagGTATGTTGAAAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACTGCCGCGGTTCATAAGGATCCAGTCACAAGG

upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA17G03920.1 (Glycine max), 3'ss of exon 9
gtaagaccgaccccaattaatct-gtgagtggcttg--actggt--ttgataatagcaatcggttgttaacttccaaaaaaac---attttttccccaagGTATGTTGAAAAGACTGGGCAGAGAGCTGTGTATACCACTGGTAAAGGTGCTTCCGCTGTGGGTCTCACAGCATCAGTACACAAGGATCCTGTCACACGC
|||  |    |   | || || | ||   |  |||   ||| ||  |  |||| |  ||    |   ||| ||   ||| |     |  | | |  ||||||||||||| || ||||| ||||||||||| || || ||||||||||| ||||| || |||||||| |||||  | || || |||||||| |||||| | 
gtataattttctagattttattttgtagatatctttttactagtgatcaataa-attaacaaatctataaattaacaaatatttcaaaatctactgcaagGTATGTTGAGAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACAGCTGCCGTTCATAAGGATCCAGTCACAAGG

upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G44900.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagaccgaccccaattaatctgtgagtggcttgactggtttgataatagcaatcggttgttaacttccaaaaaaacattttttccccaagGTATGTTGAAAAGACTGGGCAGAGAGCTGTGTATACCACTGGTAAAGGTGCTTCCGCTGTGGGTCTCACAGCATCAGTACACAAGGATCCTGTCACACGC
||||||        || ||  |||  |   |||| |||   || |||       | |  | ||  | |  |    |  | | ||||  | |||||||||||||| ||||| || |||||||| || || ||||| || || ||||| ||||| ||||| || ||| |||||||||| ||||| || ||| | 
gtaagaa-------aactatcctg--accagctt-acttaattaatatctttggt-gaatattttcattaactgcattaatgtttcttctagGTATGTTGAAAAAACTGGTCAAAGAGCTGTCTACACGACTGGAAAGGGAGCTTCTGCTGTTGGTCTAACCGCAGCAGTACACAAAGATCCAGTTACAAGG

upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S28_266V6.1 (Physcomitrella patens), 3'ss of exon 9
--gtaagaccgaccccaattaatctgtgagtggcttgactggtttgataatagcaatcggttgttaacttccaaaaaaacattttttcccca-------agGTATGTTGAAAAGACTGGGCAGAGAGCTGTGTATACCACTGGTAAAGGTGCTTCCGCTGTGGGTCTCACAGCATCAGTACACAAGGATCCTGTCACACGC
  ||||  |        |    | |||||  ||   || | ||     |   |  ||   |||  |  ||      | | | | ||   ||        |||||||| ||||| || |  ||| | || || || ||||| || ||||| ||||| || |||||||| || ||| ||||||||||||||||||| ||| | 
aggtaactcttcttaggaggtttttgtgataggtccgagtagtggaccacgtggcattttttgg-agtttagggtgagatactcttgttcctctttggcagGTATGTGGAAAAAACCGCTCAGCGTGCAGTTTACACCACAGGCAAAGGAGCTTCAGCAGTGGGTCTTACTGCAGCAGTACACAAGGATCCTGTAACAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtttgataatagcaatcggttgttaacttccaaaaaaacattttttccccaagGTATGTTGAAAAGACTGGGCAGAGAGCTGTGTATACCACTGGTAAAGGTGCTTCCGCTGTGGGTCTCACAGCATCAGTACACAAGGATCCTGTCACACGC
                      tgttaac  putative branch site (score: 2)
                                        cattttttcccc  putative PPT
                                 aaaaaaacatttttt  TA-rich tract