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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTATATGGATGTTGGGGGAATATTCTCAGGACATGCATGATGCTCCTTACGTTTTAGAAAGTGTAGTTGACAATTGGGATGATGAGCATTCTGCCGAGgtaattgagctccctgttgctagagttttgtcatcttttaccttttttatttagcacctgctcacttctttggctaattatctaaagtgtgttcattgtt...

Basic information

species Vitis vinifera
transcript Vv04s0008g03880.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: LOC_Os01g43630.2 (Oryza sativa), 5'ss of exon 9
TCTTATATGGATGTTGGGGGAATATTCTCAGGACATGCATGATGCTCCTTACGTTTTAGAAAGTGTAGTTGACAATTGGGATGATGAGCATTCTGCCGAGgtaat--tgagctccctgttgctagagttttgtcatcttttaccttttttatttagcacctgctcacttctttggctaattatctaaagtgtgttcattgtt
||||||||||||||| || |||||||| || ||||||||||||||||| ||| || | || ||| | ||||| |||||||| || ||||| ||| | |||||| |  | |  | | | |    |   || |||  ||||| |  || |  |  |   |    ||    || |  |  | |    |    |  |   | ||  
TCTTATATGGATGTTAGGAGAATATTCACAAGACATGCATGATGCTCCATACATTCTTGAGAGTCTCGTTGAAAATTGGGAGGAAGAGCACTCTCCTGAGgtagtagtaatgttcttctcttcaccattgtgttttctttcatgttatccaactgaaattaccttg--tcataagaaattaccttgtcataagaaaagtggg

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: LOC_Os01g43630.1 (Oryza sativa), 5'ss of exon 9
TCTTATATGGATGTTGGGGGAATATTCTCAGGACATGCATGATGCTCCTTACGTTTTAGAAAGTGTAGTTGACAATTGGGATGATGAGCATTCTGCCGAGgtaat--tgagctccctgttgctagagttttgtcatcttttaccttttttatttagcacctgctcacttctttggctaa--ttatctaaagtgtgttcattgtt
   |||||||||||| || |||||||| || ||||||||||||||||| ||| || | || ||| | ||||| |||||||| || ||||| ||| | |||||| |  | |  | | | |    |   || |||  ||||| |  || |  |  |   |    ||            | |  || ||  |||     |   ||  
---TATATGGATGTTAGGAGAATATTCACAAGACATGCATGATGCTCCATACATTCTTGAGAGTCTCGTTGAAAATTGGGAGGAAGAGCACTCTCCTGAGGTAgtagtaatgttcttctcttcaccattgtgttttctttcatgttatccaactgaaattaccttgtcataagaaattaccttgtcataagaaaagtgggtgc-

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G029077_T01 (Zea mays), 5'ss of exon 7
TCTTATATGGATGTTGGGGGAATATTCTCAGGACATGCATGATGCTCCTTACGTTTTAGAAAGTGTAGTTGACAATTGGGATGATGAGCATTCTGCCGAGgta--attgagctccctgttgctagagttt-tgtcatcttttaccttttttatttagcacctgctcacttctttggctaattatctaaagtgtgttcattgtt
||| |||||||||||||| |||||||| |||||||||||||||||||| ||| |  | |||||| | ||||| || |||||||| ||||| ||| | ||||||  |    | ||    ||  ||  |||| | | |||   ||  |   |   ||  | | |  |   |    |   ||||   ||  |||   |||||| | 
TCTCATATGGATGTTGGGAGAATATTCACAGGACATGCATGATGCTCCATACATCCTTGAAAGTCTTGTTGAAAACTGGGATGAAGAGCACTCTCCTGAGgtaccaacatgttcttattttgtaccgtttatcttatccagtagttgactatgttgtcccatattttatgtgcta--taatgggctccagtac-ttcattttc

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AC198725.4_FGT007 (Zea mays), 5'ss of exon 9
TCTTATATGGATGTTGGGGGAATATTCTCAGGACATGCATGATGCTCCTTACGTTTTAGAAAGTGTAGTTGACAATTGGGATGATGAGCATTCTGCCGAGgtaattgagctccctgttgctagagttttgtcatcttttaccttttttatttagcacctgctcacttctttg---gcta----attatctaaagtgtgttcattgtt--
||| |||||||||||||| |||||||| || ||||||||||||||||| ||| |  | |||| | | ||||| || |||||||| ||||| ||| | |||||| |  |    | ||||  ||   ||||||  || |||| ||| || | |   |   ||  |  |  |||    ||||    | | |||  ||   |  |    |   
TCTCATATGGATGTTGGGAGAATATTCACAAGACATGCATGATGCTCCATACATCCTTGAAAATCTTGTTGAAAACTGGGATGAAGAGCACTCTCCTGAGgta-tcaa----catgttctta---ttttgt-gtcgtttatcttattgagtagactgttgtcctgtattttacgcgctataagactgtctgcagcccgccccccctaga

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA04G08480.1 (Glycine max), 5'ss of exon 7
TCTTATATGGATGTTGGGGGAATATTCTCAGGACATGCATGATGCTCCTTACGTTTTAGAAAGTGTAGTTGACAATTGGGATGATGAGCATTCTGCCGAGgtaattg---agctccctgt-tgctagagttttgtcatcttttaccttttttatttagcacctgctcacttctttggctaattat-ctaaagtgtgttcattgtt
|||||||||||||||||||||||||||||||||||||||||||||||| || || || || ||| ||||||| || |||||||| ||||||||||| |||||| ||    | ||   | |    || |||  ||  || ||   | |||   |||||| |  | |  | ||   |||| | |||| |  ||     |        
TCTTATATGGATGTTGGGGGAATATTCTCAGGACATGCATGATGCTCCATATGTCTTGGAGAGTTTAGTTGAAAACTGGGATGAGGAGCATTCTGCTGAGgtagttacataactttttatgctttacagtggtgcaat-ttccgcatttgagatttag-attttcata-ttgaatggcaatttatgcccaacaacatgggaca--

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA06G08590.1 (Glycine max), 5'ss of exon 7
TCTTATATGGATGTTGGGGGAATATTCTCAGGACATGCATGATGCTCCTTACGTTTTAGAAAGTGTAGTTGACAATTGGGATGATGAGCATTCTGCCGAGgtaattg---agctccctgt-tgctagagttttgtcatcttttaccttttttatttagcacctgctcacttctttggctaattatctaaagtgtgttcattgtt
|||||||||||||||||||||||||||||| ||||||||||||||||| || || || || ||| ||||||| || |||||||| ||||||||||| |||||||||    | || | | |    || |||  ||  || ||  || |||   |||||| |  | |  | ||   || | | ||||    ||  |  |       
TCTTATATGGATGTTGGGGGAATATTCTCAAGACATGCATGATGCTCCATATGTCTTGGAGAGTTTAGTTGAAAACTGGGATGAGGAGCATTCTGCTGAGgtaattacataacttcttatgctttacagtcgtgcaat-ttccacatttgagatttag-attttcata-ttgaatgccaagttatgcccagcatcatgggaca-

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT5G11490.1 (Arabidopsis thaliana), 5'ss of exon 7
TCTTATATGGATGTTGGGGGAATATTCTCAGGACATGCATGATGCTCCTTACGTTTTAGAAAGTGTAGTTGACAATTGGGATGATGAGCATTCTGCCGAGgtaattgagc----------------tccctgttgctagagttttgtcatcttttaccttttttatttagcacctgctcacttctttggctaattatctaaagtgtgttcattgtt---
|||||||||||||||||| || ||| | |||||||||  |||||||||||| ||||| || | | |  | || || ||||| || |||||||| ||||||||| ||  ||                ||| || | ||  | || ||    | ||||    |   | | || || ||||||    || |  ||  |  | ||  ||||  |||||     
TCTTATATGGATGTTGGGTGAGTATGCACAGGACATGAGTGATGCTCCTTATGTTTTGGAGAATCTGATAGAAAACTGGGAGGAAGAGCATTCAGCCGAGgtatttaggcatcacttttctgtttttccttgctactgaaattatggttccatttatgcgtgagaatgaggacttgctca----ttagtatatgttcccaatttgtgc-cattgagcag

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|161711481|gb|FC058683.1|FC058683
EST:     ACGTTT-AGAAAGTGTAGTTGACAATTGGGATGATGAGCATTCTGCCGAG                         GTTCGATTGCATCTTCTTACAGCAGTAC
genomic: ACGTTTTAGAAAGTGTAGTTGACAATTGGGATGATGAGCATTCTGCCGAGgtaattgagc ... tgttggacagGTTCGATTGCATCTTCTTACAGCAGTAC