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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTTTTGATATGCTCTCACGCAAgtatgtttatgttatatattgataatttggtaattttgataaatgctttcattttcagggcttatgatcttttaatttttccttttattgtaatattggatccag

Basic information

species Vitis vinifera
transcript Vv05s0020g04100.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os01g56630.2 (Oryza sativa), 5'ss of exon 11
ACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTTTTGATATGCTCTCACGCAAgtatgtttatgttatatat-tgataatttggtaattttga-taaatgctttcattttcagggcttatgatcttttaatttttccttttattgtaatattggatccag
|||| || |||| | | || || ||||| |||||||  ||  |  | ||||| |||||||| || |||||||||||||| ||||| |||||||| |||||||||| |      || | | |   | |||  | |  |||| |   |  || |||        | ||   |    | || ||    |||  || || |||   | |||
ACTGCCTTGCAATTCTAGCAAATATGGCCCCTCATGTGCATAGGCTGAGTGCATATGCATCTCAAAGGCTGGTTAGCCTCTTTGACATGCTCTCTCGCAAgtatgctcgctcaatctttctcccagtttatttaccttgaatcttttgttacataagtgacacctaaagttaccttatcttctgcttttatgcaacattc--ttcag

upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GRMZM2G078576_T04 (Zea mays), 5'ss of exon 11
ACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTTTTGATATGCTCTCACGCAAgtatgtttatgttatatatt---gataatttggtaattttg-ataaatgctttcattttcagggcttatgatcttttaatttttccttttattgtaatattggatccag---
||||||| |||| ||| || || |||||||| ||||  ||  |  | ||||| ||||||||||| ||||| ||||| || ||||| ||||| || |||||||||| |    ||   | ||     | ||||  | | |||   | | ||||   |  |||| |     ||| | |  | |  |     || ||   || |   || ||    
ACTGTCTTGCAATTTTAGCAAATATGGCTCCGCATGTGCATAGGCTGAGTGCTTATGCATCACAAAGGCTAGTTAGTCTCTTTGACATGCTTTCTCGCAAgtatgctagcctttactcttttccctgatttatttactttatgttagtgct---aacttcaagt----tgaacctaaagtaatcttgcttgtttgtatgtaccatgcaatag

upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA20G28880.1 (Glycine max), 5'ss of exon 10
ACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTTTTGATATGCTCTCACGCAAgtatgtttatgttatatattgataatttggtaattttgataaatgctttcattttcagggc-ttatgatcttt--taatttttccttttattgtaatattggatccag----
  || || ||||| ||||| |||||||| |||||||  || ||||| ||||| |||||||| |||||  | || ||||||||||||||||| ||||||||||||||   | || | | |||      |  |  | |     | | ||||   | | ||  | || | |||  |  | |    ||     |   ||   |||  ||       
CATGCCTGGCAACCTTGGCAAACATGGCACCTCATGTTCATCGTTTGAGTGCATATGCATCTCAGAGATTAGTCAGCCTTTTTGATATGCTTTCACGCAAgtatgtcactcttttgt-ttgccttcataatgttctattccatttctttatgtcttagaacattgtaatcactggttaaaaatctggccaccatatatttgcttcttattag

upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA10G38920.2 (Glycine max), 5'ss of exon 11
ACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTTTTGATATGCTCTCACGCAAgtatgtttatgttatatattgataatttggtaattttgataaatgctttcattttcagggc-ttatgatcttt--taatttttccttttattgtaatattggatccag----
  || || ||||| ||||| ||| |||| |||||||  || ||||| ||||| |||||||| |||||  | || ||||||||||||||||| ||||||||||||||   | || | | |||      |  |  | |     | | ||||   | | ||  | || | |||     | |    ||     |   ||   |||  ||       
CATGCCTGGCAACCTTGGCAAACGTGGCACCTCATGTTCATCGTTTGAGTGCATATGCATCTCAGAGATTAGTCAGCCTTTTTGATATGCTTTCACGCAAgtatgtcactcttttgt-ttgtcttcataatgttctattccatttctttatgtcttagaacattgtaatcaccggttaaaaatctggccaccatatatttgcttcttattag

upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT1G04200.1 (Arabidopsis thaliana), 5'ss of exon 11
ACTGTCTCGCAACTTTGGCGAACATGGCTCCTCATGCCCACCGTTTAAGTGCCTATGCATCACAGAGGCTGGTTAGCCTTTTTGATATGCTCTCACGCAAgtatgt--tta---tgttatatattgataatttggtaattttgataaatgctttcattttcagggcttatgatcttttaatttttccttttattgtaatattggatccag
  || || || || ||||| |||||||| ||||||||||| | ||||||||| ||||| ||||||||||| || ||||||||  | ||||| || || |||||||   |||     |  | | || || | ||  ||| | || |   |   | ||| |||  |  | | |     | |||| ||      |                  
CTTGCCTTGCTACGTTGGCTAACATGGCACCTCATGCCCATCATTTAAGTGCATATGCCTCACAGAGGCTTGTCAGCCTTTTCTACATGCTTTCTCGAAAgtatgcaattagttcctcgtctttttatgacttcataaatctgtt---tttgtacatattcctgtataacggatcatgaattgtttaacacag-----------------

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|161714238|gb|FC064147.1|FC064147
EST:     GCCTATGCATCACAGAGGCTGGTTAGCCTTTTTGATATGCTCTCACGCAA                         GTATAATAAGTTAGCAGAGTTAATGGATGA-ATAAGTGCATATA
genomic: GCCTATGCATCACAGAGGCTGGTTAGCCTTTTTGATATGCTCTCACGCAAgtatgtttat ... ttggatccagGTATAATAAGTTAGCAGAGTTAATGGATGATAAAA-TGCATATA