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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtcaataatgttagtagtaaaatttacatcacaattaagatttcatgctaatcaatttggtaaaatagaacttcaactttctttttcttttgtccttcagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG

Basic information

species Vitis vinifera
transcript Vv00s0327g00020.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0327g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G11100.1 (Glycine max), 3'ss of exon 6
gtcaataatgtta-gtagtaaaatttacatcacaattaagatttcatgctaatca---atttggtaaaatagaacttcaactttctttttcttttgtccttcagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
 |||| | | ||   |   || |||   ||       ||  |    |     |||    |         | |   || ||   | | ||||||||   ||  ||||| ||| ||||||||||||||||| || ||||||||||||||||||||   ||| |||||||| ||||| || || |  ||||
-tcaaaatttttgcatctgaatattcttatatatgccaatgtccattatctgtcatatgtccatggccttcggtgttaaataatgtatttctttt---ctctagATTATCCTGTCTATCACACTGCTTTCGATTCCTATAACTGGATGACAAAGTTTGGAGATCCATTCTTTCAGCGCCATGAAGCTG

upper sequence: Vv00s0327g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G36430.1 (Glycine max), 3'ss of exon 5
--gtcaataatgttagtagtaaaatttacatcacaattaagatttcatgctaatcaatttggtaaaatagaac--ttcaactttctttttcttttgtccttcagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
   | || | | ||  |||   ||| | |        |||  |   |     ||    ||||  |  ||  |   |  ||   ||| ||||    |   | |||||||||| |||||||||||||| || |||||||||||||||||| || |  |||| |||||||| || || || || || ||||
aaattaa-attatttctagctcaatatgccatgtctataatgtcatacatccataggcttgggtatctaatatgatgtaataatctctttcg---gatttccagATTTTCCCGTCTATCACACTGCGTTCGACTCCTATAACTGGATGGCAGAGTATGGAGATCCATTCTTCCACCGCCATGTTGCTG

upper sequence: Vv00s0327g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G39080.1 (Glycine max), 3'ss of exon 5
-------------------------------------------------------------------gtcaataatgttagtagtaaaatttacatcacaattaagatttcatgc--taatcaatttgg-----taaaa--tagaacttcaactttctttttcttttgtccttcagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
                                                                    | || | | ||  |||   ||| | |        ||| || ||||      ||  | ||||     ||| |  |||   |  ||   |  | |  ||      | |||||||||| |||||||||||||| || |||||||||||||||||| || |  |||| |||||||| || || || || || ||||
gtatgtatctcatgattcactgtccagtcccagattctttaggcatatattgttttgtaatacaaaaattaa-attatttctagctcaatatgccatgtctataatatgtcatatatccatggacttggatttctaataattagtgatgtaataataatatctttcctatttccagATTTTCCCGTCTATCACACTGCATTCGACTCCTATAACTGGATGGCAGAGTATGGAGATCCATTCTTCCACCGCCATGTTGCTG

upper sequence: Vv00s0327g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G23220.1 (Glycine max), 3'ss of exon 6
-gtcaataatgttagtagtaaa--atttacatcacaattaagat-ttcatgctaatcaatttggtaaaatagaacttcaactttctttttcttttgtccttcagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
  |||||| || |  || ||    || |  || |    | | || | |||     | |||||   | |||||   |  ||   ||| ||||    |   | ||||||| ||  ||||||||||||| || |||||||||||||||||| || |  || | |||||||| || || || || ||  |||
cctcaata-tgcttctaatatgccatgtctataatgtgtcatatatccataggcttgaatttctaataatagtggtgtaataatctctttcc---gatttccagATTTCCCCATCTATCACACTGCGTTCGACTCCTATAACTGGATGGCATAGTATTGAGATCCATTCTTCCACCGCCATGTTACTG

upper sequence: Vv00s0327g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G54720.1 (Arabidopsis thaliana), 3'ss of exon 5
gtcaat---aatgttagtagtaaaat-ttacatcacaat-taagatttcatgctaatcaat-ttggtaaaatagaacttcaactttctttttcttttgtccttcagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
||||||   ||  | | |  | || | || ||  | | | ||  || | ||| |  | |||    |||| |   |   |  |  || ||| || |||  | |||||||| ||| |||||||||||||| |||||||||||| | |||||||   || | |  |||||||||||||| ||||| || ||| 
gtcaatgagaacatgattccttaagtcttgcaaaatattctataatgtgatgtt--ttaatgcaagtaataccaataatgtatgttgtttatccttt--ctttcagATTATCCTGTCTATCACACTGCATTTGACTCCTATGATTGGATGATCCACAACGCAGATCCATTGTTTCACCGTCATGTTGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctaatcaatttggtaaaatagaacttcaactttctttttcttttgtccttcagATTTTCCAGTCTATCACACTGCTTTTGACTCCTATAACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCACGTGGCTG
 tgctaat  putative branch site (score: 2)
                         cttcaactttcttttt  putative PPT
        aatttggtaaaata  TA-rich tract