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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattgatcttgctgtgcacaaggtcttgatttcccgctactaattccatcctttggaatggggtcttgttatttaatcattattatatttatcagttgaatttgttggataactacagAATTTAAAGGTTCATGAGAACAGAAGGCAGTTGTTTTCTTCAACTGCTTCAAAAGAGTCCACAAATCCTTTTGTTCGCCAGCGTCCATTGGCTGCAAAAT

Basic information

species Vitis vinifera
transcript Vv11s0016g04370.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g04370.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G24350.2 (Arabidopsis thaliana), 3'ss of exon 3
gtatattgatcttgctgtgcacaaggtcttgatttcccgctactaattccatc-ctttggaatggggtcttgttatttaatcattattatatttatcagttgaatttgttggataactacagAATTTAAAGGTTCATGAGAACAGAAGGCAGTTGTTTTCTTCAACTGCTTCAAAAGAGTCCACAAATCCTTTTGTTCGCCAGCGTCCATTGGCTGCAAAAT
                              | |||  |  |  |   || ||  ||||   ||   |  |   |||  | || | | |  |  ||| | ||  | ||||  | |   | |||||| | ||||| ||||| |  ||||||||  | || ||||||| |||||||||||| || ||||| || || |||||||||||||| |||||||| ||  
------------------------------gttttttctttgttccgtcgatttcttttcgataaagcttgagtatgcagtcgtgactg-agctatgattt--acttgtctggtg-ttgcagAATATGAAGGTCCATGAAAGTAGAAGGCAACTCTTCTCTTCAAATGCTTCAAAAGAATCAACAAACCCATTCGTTCGCCAGCGTCCTTTGGCTGCTAAGG
















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|351030339|gb|FQ432277.1|FQ432277
EST:     TGATGAGCGCGACAAAGGAGTTCAAAGATGTTCTCACCATGCGAACAGAG                         AATTTAAAGGTTCATGAGAACAGAAGGCAGTTGTTTTCTTCAACTGCTTCA
genomic: TGATGAGCGCGACAAAGGAGTTCAAAGATGTTCTCACCATGCGAACAGAGgtatattgat ... ataactacagAATTTAAAGGTTCATGAGAACAGAAGGCAGTTGTTTTCTTCAACTGCTTCA
EST: gi|349816228|gb|FQ403724.1|FQ403724
EST:     TGATGAACGCGACAAAGGAGTTCAAAGATGTTCTCACCATGCGAACAGAG                         AATTTAAAGGTTCATGAAAACCGAAGGCAGTGGTTTTCTT-AACTG
genomic: TGATGAGCGCGACAAAGGAGTTCAAAGATGTTCTCACCATGCGAACAGAGgtatattgat ... ataactacagAATTTAAAGGTTCATGAGAACAGAAGGCAGTTGTTTTCTTCAACTG
EST: gi|349821277|gb|FQ404409.1|FQ404409
EST:     TGATGAGCGCGACAAAGGAGTTCAAAGATGTTCTCACCATGCGAACAGAG                         AATTTAAAGGTTCATGAGAACAGAAGGCAGTTGTTTTCTTCAACTGCTTCA
genomic: TGATGAGCGCGACAAAGGAGTTCAAAGATGTTCTCACCATGCGAACAGAGgtatattgat ... ataactacagAATTTAAAGGTTCATGAGAACAGAAGGCAGTTGTTTTCTTCAACTGCTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgttatttaatcattattatatttatcagttgaatttgttggataactacagAATTTAAAGGTTCATGAGAACAGAAGGCAGTTGTTTTCTTCAACTGCTTCAAAAGAGTCCACAAATCCTTTTGTTCGCCAGCGTCCATTGGCTGCAAAAT
                                           ggataac  putative branch site (score: 3)
     ttatttaatcattatt  TA-rich tract