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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgatctctgtcttgttgcttatttttggtattataatggatctacttcatttgtgatgatatacctaattaattagGTTATGCACGGGGCAGATCGGGATATCATTTGGCTTCAACGGGATTTTGGCATATACATCTGCAACATGTTTGATACCGGACAG

Basic information

species Vitis vinifera
transcript Vv08s0056g01320.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os10g30100.1 (Oryza sativa), 3'ss of exon 3
----------gttgatctctgtcttgttgcttatttttggtattataatggatctacttcatttgtgatgatatacctaat--taattagGTTATGCACGGGGCAGATCGGGATATCATTTGGCTTCAACGGGATTTTGGCATATACATCTGCAACATGTTTGATACCGGACAG
           |   ||    | ||  | | | |   |  | ||||| ||   | | |   |   |  | ||    || ||   |  ||||| ||||| || |||||||| ||||| || |||||||||||||| |||||||||||  | |||||| | ||||| || || |||
gtataacatgctctttcatcattttcatacatgtgcatattgttata-tgctccaattgtgtagattctcattgctcttatggcacatagGTAATGCATGGTGCAGATCGTGATATAATATGGCTTCAACGGGACTTTGGCATATATGTATGCAACCTTTTTGACACAGGCCAG

upper sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G35910.1 (Arabidopsis thaliana), 3'ss of exon 3
gttgatctctgt---cttgttgcttatttttggtattataatggatctacttcatttgtgatgatatacctaattaattagGTTATGCACGGGGCAGATCGGGATATCATTTGGCTTCAACGGGATTTTGGCATATACATCTGCAACATGTTTGATACCGGACAG
|||  ||   |    |||       |||        | |||   || |  |   |        || |   ||  ||||||||| ||||| || |||||||| ||||| || |||||||||||||| || ||||||||  |||||||  | ||||| || ||||||
gtttttcctgggatacttcaattccattacaaaaggtctaaaatatattttctgtgctctgaaatctgtttatgtaattagGTAATGCATGGAGCAGATCGAGATATTATCTGGCTTCAACGGGACTTCGGCATATATGTCTGCAATCTCTTTGACACAGGACAG

upper sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G54440.2 (Arabidopsis thaliana), 3'ss of exon 3
-gttgatctctgtcttgttgcttatttttggtattataat--ggatctacttcatttgtgatgatat-acctaa-ttaattagGTTATGCACGGGGCAGATCGGGATATCATTTGGCTTCAACGGGATTTTGGCATATACATCTGCAACATGTTTGATACCGGACAG
  ||  ||  |     |     | ||||    |  ||     | || || || ||     |||| |  |  ||| |||| ||||| || || || |||||||| ||||| ||||||||||||||||| |||||||| ||  |||||||  | ||||| || ||||||
gttttctccataatgcgcaatgtgttttctacagaattcctagaatatagttaatacaatatgaaaccatttaacttaactagGTAATCCATGGAGCAGATCGAGATATTATTTGGCTTCAACGGGACTTTGGCATTTATGTCTGCAATCTTTTTGACACAGGACAG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|352774123|gb|FQ474646.1|FQ474646
EST:     ATGTTGGTCCATATTTGAGGGAGGTCTTCAAAGATCCAACAAAGAAAAAG                         GTTATGCACGGGGCAGATCGGGATATCATTTGGCTTCAACGGGATTTTGGC
genomic: ATGTTGGTCCATATTTGAGGGAGGTCTTCAAAGATCCAACAAAGAAAAAGgttgatctct ... aattaattagGTTATGCACGGGGCAGATCGGGATATCATTTGGCTTCAACGGGATTTTGGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttggtattataatggatctacttcatttgtgatgatatacctaattaattagGTTATGCACGGGGCAGATCGGGATATCATTTGGCTTCAACGGGATTTTGGCATATACATCTGCAACATGTTTGATACCGGACAG
                                         acctaat  putative branch site (score: 3)
                                     atatacctaattaatt  TA-rich tract