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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcattgcctttcttcttctttggtgtcaacacatacataagataatcaggacagcattacaggaaacaaaagatcctcattgattttggatttccccttatctccccagtgttgattgaggtggtttttggcagGTTACATTGCCATTCTTTGTGCTGCACGGCGAGGCAGATACAGTGACTGACCCAGACGTGAGCCGGGCACTGTATGGACAAGCCAGTAGCAGAGACAAGA

Basic information

species Vitis vinifera
transcript Vv07s0005g00510.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g00510.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g21310.1 (Oryza sativa), 3'ss of exon 3
gtcattgcctttcttcttctt-tggtgtcaacacatacataagataatc-----------aggacagcattacaggaaacaaaagat--cctcattgattttggatttcccc----ttatct--ccccagtgttgat----tgaggtggtttttggcagGTTACATTGCCATTCTTTGTGCTGCACGGCGAGGCAGATACAGTGACTGACCCAGACGTGAGCCGGGCACTGTATGGACAAGCCAGTAGCAGAGACAAGA
||   | ||  || |||||   |    |||| | || ||  |  || |            ||||  ||| ||     |    |  ||   ||     || |  |||  |       |||| |        |  |||     | | ||  |||||||||||| |   |||| ||||| |||||||||||||| || || || ||||| ||||| || ||||||||||| ||||| |  |  |||   |||   |||||| 
gtatgtacccctcgtcttcaaatcaactcaatatatgcaccaattagttctcacatctttaggatggcactaagatcacttgagtatgatcttggccatgtaagatgacagtaagattatttgaatttgatcctgacaatgtaatgttttttttggcagGTGAAGCTGCCGTTCTTCGTGCTGCACGGCGACGCCGACACGGTGACGGACCCGGAGGTGAGCCGGGCGCTGTACGAGCGCGCCGCCAGCGCCGACAAGG
















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|110423997|gb|EC990350.1|EC990350
EST:     CGCTGGAAATGCTCAGAACCAGCATGAGCCTCGAGGACTCATTACATGAG                         GTGACATTGCCATTCTTTGTGCTGCACGGCGAGGCAGATACAGTGACCGAC
genomic: CGCTGGAAATGCTCAGAACCAGCATGAGCCTCGAGGACTCATTACATGAGgtcattgcct ... tttttggcagGTTACATTGCCATTCTTTGTGCTGCACGGCGAGGCAGATACAGTGACTGAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgattttggatttccccttatctccccagtgttgattgaggtggtttttggcagGTTACATTGCCATTCTTTGTGCTGCACGGCGAGGCAGATACAGTGACTGACCCAGACGTGAGCCGGGCACTGTATGGACAAGCCAGTAGCAGAGACAAGA
                              tgttgat  putative branch site (score: 4)
                                             ttttt  putative PPT
                                             ttttt  TA-rich tract