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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgataacagatttacatattagattgcatctcttccacatcaatattcttgtgatgaacgatcctgttctggtcctgttgatacagGTCAACAACTGCATATATTACTGTTGCTGCCTTTCTCCTAGGGGCTCTTTGTTCAGGAATTGCTGGGTATGTTGGAATGTGGGTGTCGGTACGTGCAAAC

Basic information

species Vitis vinifera
transcript Vv09s0054g00700.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g33490.1 (Oryza sativa), 3'ss of exon 4
gtgataacagatttacatattagattgcatctcttccacatcaatattcttgtgatgaacgatcctgttctggtcctgttgatacagGTCAACAACTGCATATATTACTGTTGCTGCCTTTCTCCTAGGGGCTCTTTGTTCAGGAATTGCTGGGTATGTTGGAATGTGGGTGTCGGTACGTGCAAAC
|||||  |  |||   ||  |  |    ||||  |      | ||   | | |||      |||   |     || || | ||| ||| ||||| | |||||||||||||||||| |||||||||| || ||| | ||||| || |||||||| | |||||| |||||||| || ||||||||||| 
gtgatttcccattcttattctgaa----atcttatttgtgcccat---cctttgac-----atctcatgaatatcatggttatatagGACAACATCGGCATATATTACTGTTGCTTCCTTTCTCCTTGGAGCTTTATGTTCTGGGATTGCTGGTTTTGTTGGGATGTGGGTATCCGTACGTGCAAAT

upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G075900_T01 (Zea mays), 3'ss of exon 4
--------------gtgataacagatttacatattagattgcatctcttccacatcaatattcttgtgatgaacgatcctgttctggtcctgttgatacagGTCAACAACTGCATATATTACTGTTGCTGCCTTTCTCCTAGGGGCTCTTTGTTCAGGAATTGCTGGGTATGTTGGAATGTGGGTGTCGGTACGTGCAAAC
               | ||   | | ||   |  ||  ||| || | ||    |    | ||    || |||    || ||   |  || ||   |  |||| |||||   || |||||||| |||||  | |||||||| || ||  | ||||| ||||| ||||| | |||||||||||||||||| ||||||||||| 
gtgatttttctgccattatctgaaactttttttgtac-ttgtatatgtttattagt--tgttgccatgttgatatctcatgaatta-tcatgactacgcagGGCAACATTAGCCTATATTACAGTTGCCTCTTTTCTCCTTGGAGCGTTATGTTCTGGAATAGCTGGTTTTGTTGGAATGTGGGTGTCCGTACGTGCAAAT

upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G78920.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgataacagatttacatattagattgcatctcttccacatcaatattcttgtga-tgaacgatcctgttctggtcctgttgatacagGTCAACAACTGCATATATTACTGTTGCTGCCTTTCTCCTAGGGGCTCTTTGTTCAGGAATTGCTGGGTATGTTGGAATGTGGGTGTCGGTACGTGCAAAC
||| | | | ||    | |||     |  |   ||   | |    ||| |||||| ||||   |     | |     | ||| | |||| | |   |||| ||||||||||||||||| |||||  | |||||||| || ||||| |||||||| |||||||||||||||||||| || ||||| || 
gtgctgatacatgattacattcacaagatttattttatcttttgaattgttgtgaatgaagcttagccatattactattttgctgcagGGCGATGTCTGCTTATATTACTGTTGCTGCATTTCTTTTGGGGGCTCTATGCTCAGGTATTGCTGGATATGTTGGAATGTGGGTGTCAGTTCGTGCTAAT

upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgataacagatttacatattagattgcatctcttccacatcaatattcttgtgatgaacgatcctgttctggtcctgttgatacagGTCAACAACTGCATATATTACTGTTGCTGCCTTTCTCCTAGGGGCTCTTTGTTCAGGAATTGCTGGGTATGTTGGAATGTGGGTGTCGGTACGTGCAAAC
||||| | | || | | ||    ||    ||| ||   | |   | || || | |  ||   ||   |      | |  || | |||| |||   ||||||| |||||||||||||| |||||  | || || || |||||||| |||||||| |||||||||||||||||||| || ||||| || 
gtgatcatacatcttc-tacagaatcttttcttttat-cttttgtgttgttataaataaaactcaaatgtataactttgtgcttcagGACAATGTCTGCATACATTACTGTTGCTGCATTTCTTTTGGGTGCGCTATGTTCAGGTATTGCTGGATATGTTGGAATGTGGGTGTCAGTTCGTGCTAAT

upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S28_200V6.1 (Physcomitrella patens), 3'ss of exon 4
gtgataacagatttacatattagattg--catct--------cttccacatcaatattcttgtgatgaac---gatc-ctgttctggtcctg-ttgatacagGTCAACAACTGCATATATTACTGTTGCTGCCTTTCTCCTAGGGGCTCTTTGTTCAGGAATTGCTGGGTATGTTGGAATGTGGGTGTCGGTACGTGCAAAC
  | ||  ||| | |  ||||  |     |||||        |||         |  |  ||| ||||     |||  ||  |   | |||| ||  | |||||||||    || | |||||| |||    | || ||  |||| ||||||||||| || |||||||| ||  |||| |||||||| |||||||| ||||| 
--ggtagtagagtcaattattgcaacagtcatctatggtggtcttttctgcaggttgttctgtaatgatttttgattgctactgatgccctggttctttcagGTCAACGTTGGCTTTTATTACGGTTCTATCATTCCTTTTAGGAGCTCTTTGTTCGGGTATTGCTGGCTACATTGGTATGTGGGTCTCGGTACGAGCAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttccacatcaatattcttgtgatgaacgatcctgttctggtcctgttgatacagGTCAACAACTGCATATATTACTGTTGCTGCCTTTCTCCTAGGGGCTCTTTGTTCAGGAATTGCTGGGTATGTTGGAATGTGGGTGTCGGTACGTGCAAAC
                                            tgttgat  putative branch site (score: 4)
                                         tcctgtt  CT-rich tract
       atcaatatt  TA-rich tract