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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaacatgtgctacattgctgaacacccatttttgtgttcttgaaatattttatagcattctttaatctctggacattggtttgtttctatggttctcatcttcttttttgtgttttagTTCAAGAGTGAGATCAGAACAGTCACTTGTGAGATGGGCTACTCCCCAACTTCATGATATAGATGCCCTGGCAAAAATGGTTGATCCTTCCCTAAATGGC

Basic information

species Vitis vinifera
transcript Vv10s0116g00050.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0116g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g09740.2 (Oryza sativa), 3'ss of exon 14
gtagaacatgtgctacattgctgaacacccatttttgtgttcttgaaatattttatagcattctttaatctctggacattg-gtttgtttctatggttctcatcttcttttttgtgttttagTTCAAGAGTGAGATCAGAACAGTCACTTGTGAGATGGGCTACTCCCCAACTTCATGATATAGATGCCCTGGCAAAAATGGTTGATCCTTCCCTAAATGGC
                                            | |   || ||    ||  |  |||| | |  ||||| ||||  |    ||    | | |||||  |   | ||  ||||| |||| |||||||||||| || |||||  ||||||||||||| || ||||||||||| ||||| || || || ||||| |||||  |  ||||||| 
--------------------------------------------gtatgcttctagtttatattcaaatcccggtgcattgcgttttataaattgaaaatgaccttctgatggatattgcagTTCTAGAGAGAGATCAGAACAATCTCTTGTTCGATGGGCTACTCCACAGCTTCATGATATCGATGCGCTTGCTAAGATGGTGGATCCAGCATTAAATGGA

upper sequence: Vv10s0116g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os06g42800.1 (Oryza sativa), 3'ss of exon 14
gtagaacatgtgctacattgctgaacacccatttttgtgttcttgaaatattttatagcattctttaatctctggacattggtttgtttctatggttctcatcttcttttttgtgttttagTTCAAGAGTGAGATCAGAACAGTCACTTGTGAGATGGGCTACTCCCCAACTTCATGATATAGATGCCCTGGCAAAAATGGTTGATCCTTCCCTAAATGGC
   | |||| | |   |||  |  | | | | |   ||  |    ||||   | || | |||  || ||   |        |   ||   |    ||||  | ||    | ||      || || |||| ||| || |||||||| ||||| | |||||||||||| || |||||||| || ||||| || || || |||||||||||  |  |  |||| 
---gtacat-taccttattatttcagagctagtaa-gtagtaagaaaatgagtaat-gtatttctttattagtaacttcaaggccgtcattc--attcttgtgttgcaatgtgc-----agCTCTAGAGAGAGGTCCGAACAGTCTCTTGTCACATGGGCTACTCCACAGCTTCATGACATCGATGCGCTTGCCAAGATGGTTGATCCAGCAATGGATGGG

upper sequence: Vv10s0116g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G103070_T01 (Zea mays), 3'ss of exon 14
gtagaacatgtgctacattgctgaacacccatttttgtgttcttgaaatattttatagcattctttaatctctggacattggtttgtttctatggttctcatcttcttttttgtgttttagTTCAAGAGTGAGATCAGAACAGTCACTTGTGAGATGGGCTACTCCCCAACTTCATGATATAGATGCCCTGGCAAAAATGGTTGATCCTTCCCTAAATGGC
                                 | |||| ||| ||    || |||   || ||        |   | | |   || ||   | |   |   |||    |     ||  ||||| |||| ||| ||||||||||| ||||| ||||||||||| || |||||||||||||| ||||| || || |  |||||||||||  |  |||| || 
--------------------------------gtatgtgatctaga----ttgtatccaatcctggttcgcttcagcttcgaagtggtt--gttgaaatagcctttggatgatcattgcagTTCCAGAGAGAGGTCAGAACAGTCTCTTGTTAGATGGGCTACCCCTCAACTTCATGATATTGATGCACTTGCTAGGATGGTTGATCCAGCATTAAACGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctctggacattggtttgtttctatggttctcatcttcttttttgtgttttagTTCAAGAGTGAGATCAGAACAGTCACTTGTGAGATGGGCTACTCCCCAACTTCATGATATAGATGCCCTGGCAAAAATGGTTGATCCTTCCCTAAATGGC
 ctttaat  putative branch site (score: 4)
                             ttctcatcttcttttt  putative PPT
                                        ttttttgtgtttta  TA-rich tract