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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaagttgattctcttctaaatgataatgacttgtttttcctagacaagtatttttctgacactgtcatgtggtttggcttgaaatatagGTTACTGGAAAGGCCCTTATGTTGGATGAAATAATCAACTATGTCCAGTCCCTACAGAATCAAGTAGAG

Basic information

species Vitis vinifera
transcript Vv17s0000g00430.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g00430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os09g33580.1 (Oryza sativa), 3'ss of exon 3
-----------------------gtgaagttgattctcttctaaatgataatgacttgtttttcctagacaagtatttttctgacactgtcatgtggtttggcttgaaat-----------atagGTTACTGGAAAGGCCCTTATGTTGGATGAAATAATCAACTATGTCCAGTCCCTACAGAATCAAGTAGAG
                          ||  |  |  | ||   | ||| |||    | |||||  || |     || | | ||| ||| || |      ||     ||||            ||||| ||||||||||| || || |||||||| || ||||||||||| |||||| ||||||| ||||| |||
gttagatcactagttaactactaactaaactagtggtatttgcagtgacaat----ttttttttgtatatgttaatatgtttgatactatctttgaaagtgaaaaaaaatcatttatctgtgtagGTCACTGGAAAGGCTCTCATTTTGGATGAGATCATCAACTATGTGCAGTCCTTACAGAACCAAGTTGAG

upper sequence: Vv17s0000g00430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g42470.1 (Oryza sativa), 3'ss of exon 3
----------------------------------------------------------------------gtgaagttgattctcttctaaatg-ataatgacttgtttttcctagacaagtatttttctgacactgtcatgtggt--ttggcttgaaatatagGTTACTGGAAAGGCCCTTATGTTGGATGAAATAATCAACTATGTCCAGTCCCTACAGAATCAAGTAGAG
                                                                       |||   | ||| |  |  |  || | | |          || |    | | ||   ||| ||  ||  | |       ||   |    |  |||||||||||||||| || || |||||||| || ||||||||||| |||||  | ||||| ||||| |||
gtaaaaaataagttggttactatttaactattacatgctctagttcaattctttcctctcatttttatttttgagagtaattattgttgagttgtacagttgtagtgacatcttgctaatgcatggctctaactttgataagaaacaactgtgcttttcttcagGTTACTGGAAAGGCTCTCATTTTGGATGAGATCATCAACTATGTACAGTCGTTGCAGAACCAAGTTGAG

upper sequence: Vv17s0000g00430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G882527_T03 (Zea mays), 3'ss of exon 3
-----------------------gtgaagttgattctcttctaaatgataatgacttgttttt-----cctagacaagtatttttctgacactgtca-tgtggtttggcttgaaatatagGTTACTGGAAAGGCCCTTATGTTGGATGAAATAATCAACTATGTCCAGTCCCTACAGAATCAAGTAGAG
                        |  | |||||   ||  ||  || | || | || |  |        ||   |   |  |||  ||       | |||| |||   ||| |    ||||||||||||||||||| ||  ||||||| || ||||||||||| |||||||| ||||| ||||| |||
gtcagattagttacttggattaactatatttgatatactgatatctgcttataagttatagtaggccgtttaagtagtaaactttgagaaggaacaaatgtgcttttttttgga---cagGTTACTGGAAAGGCCCTGATTCTGGATGAGATTATCAACTATGTGCAGTCCCTGCAGAACCAAGTTGAG

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|110369449|gb|EC933609.1|EC933609
EST:     TCAGTGAGAGGATGAAGCTCTTGCAAGCACTTGTTCCTGGTTGTGACAAG                         GTTACTGGAAAGGCCCTTATGTTGGATGAAATAATCAACTATGTCCAGTCC
genomic: TCAGTGAGAGGATGAAGCTCTTGCAAGCACTTGTTCCTGGTTGTGACAAGgtgaagttga ... tgaaatatagGTTACTGGAAAGGCCCTTATGTTGGATGAAATAATCAACTATGTCCAGTCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcctagacaagtatttttctgacactgtcatgtggtttggcttgaaatatagGTTACTGGAAAGGCCCTTATGTTGGATGAAATAATCAACTATGTCCAGTCCCTACAGAATCAAGTAGAG
                   ttctgac  putative branch site (score: 2)
           aagtattttt  TA-rich tract