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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGCGTTGGGGGCAATATAACCACCATGGAGGGGGACGGCTATCTCTGGGAGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCCgtaagttttgagcctcatctgggtttcactgacccacttattatctccgttgataggatcatattccttcttatattcccaccatttctgcttgcaatgc...

Basic information

species Vitis vinifera
transcript Vv07s0005g02540.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g02540.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os01g18320.1 (Oryza sativa), 5'ss of exon 1
TCGCGTTGGGGGCAATATAACCACCATGGAG------GGGGACGGCTATCTCTGGGAGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCCgtaagttttgagcctcatctgggtttcactgacccacttattatctccgttgataggatcatattccttcttatattcccaccatttctgcttgcaatgc
       || ||||| || ||||||   |||      || || ||||| ||||||||||| || ||||||||||||||||| |||||  || | ||||||||||||||| || ||    |||  ||    |||  |||  | ||        | |  || | ||    | |     |  |  | |    |||   ||  |||    
------CGGCGGCAACATCACCACCGCCGAGCGCGCCGGCGAGGGCTACCTCTGGGAGGAGGGGCCCAACAGCTTCCAGCCTTCCGACCCCGTCCTCACCATGGCCgtacgtcttcttgctccccttctcttc--tgattctctcg------cggcggagacgacatgaatgggaatggtggtgcatggattggggcgcgcag---

upper sequence: Vv07s0005g02540.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G039396_T01 (Zea mays), 5'ss of exon 1
TCGCGTTGGGGGCAATATAACCACCATGGAG------GGGGACGGCTATCTCTGGGAGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCCgtaagttttgagcct-catctgggtttcactgacccacttattatctccgttgataggatcatattccttcttatattcccaccatttctgcttgcaatgc
       || ||||| || |||||| | |||      | ||| || || ||||||||||| || |||||||||||||||||||||||  || | ||||||||||||||| | |    ||   |  |   |  ||     | ||    | ||        || | ||     | ||   |  |||      ||    ||  |||    
------CGGCGGCAACATTACCACCGTCGAGCGCCCCGAGGAAGGGTACCTCTGGGAGGAGGGTCCCAACAGCTTCCAGCCCTCCGACCCCGTTCTCACCATGGCCgtacgctcctcgctggcgccgcagcgtcttcttctcagac-tcatgcggagccatggaattgagatgctgaatggatttt----atgcgcgcgcgcag---

upper sequence: Vv07s0005g02540.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA10G27890.1 (Glycine max), 5'ss of exon 1
TCGCGTTGGGGGCAATATAACCACCATGGAGGGGGACGGCTATCTCTGGGAGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCCgtaagttttgagcctcatctgggtttcactgacccacttattatctccgttgataggatcatattccttcttatattcccaccatttctgcttgcaatgc---
 ||||| || ||||| || ||||| |||||| ||||||| || |||||||| ||||||||||||||||||||||| || ||| | |||||||||||||  ||| ||  ||   ||     ||  |||  |      | ||   |  || |  |     | |  |    |   |||   | |  |||| |  |  || | |   
CCGCGTCGGCGGCAACATCACCACGATGGAGAGGGACGGATACCTCTGGGAAGAAGGCCCCAACAGCTTCCAGCCTTCTGATCCAATGCTCACCATGGTGgtatgtgatgtttctttcgcggaattcggttttgagcctaacttgaccctaaa---agttaattcgggttcaataggtcaattatttgtattatcatttcaaa

upper sequence: Vv07s0005g02540.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA02G01000.1 (Glycine max), 5'ss of exon 2
TCGCGTTGGGGGCAATATAACCACCATGGAGGGGGACGGCTATCTCTGGGAGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCCgtaagttttgagcctc-------atctgggtttca--ctgac-ccacttattatctccgttgataggatcatattccttcttatattcccaccatttctgcttgcaatgc
|  ||  || ||||| || ||||| |||||| | | ||| || |||||||| ||||||||||||||||| |||||||| ||| | |||||||||||||  ||| ||  ||   ||        ||  |||||| |  || || | |||    |  |  |   ||||||| |  || ||||       |  || |||| || |   |    
TGTCGGCGGCGGCAACATCACCACGATGGAGAGTGGCGGATACCTCTGGGAAGAAGGCCCCAACAGCTTTCAGCCCTCTGATCCAATGCTCACCATGGTGgtatgtaatgtttctttctccaaattcgggtttgagcctaactctactctaaaagttagcgcataggataaggttacttccg-----cttactattt-tggtcata----

upper sequence: Vv07s0005g02540.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ34803 (Selaginella moellendorffii), 5'ss of exon 1
TCGCGTTGGGGGCAATATAACCACCATGGAGGGGGACGGCTATCTCTGGGAGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCCgtaagttttgagcctcatctgggtttcactgacccacttattatctccgttgataggatcatattccttcttatattcccaccatttctgcttgcaatgc
  | || ||||| ||||| || ||  |||||  ||| || ||| | ||||||||||| || |||||||||||||||  |||||| |||||||||||||| ||| ||    || ||| |   | |||   |  |    | ||  ||   |  |                                                
GAGAGTAGGGGGAAATATCACGACGCTGGAGTCGGATGGATATTTGTGGGAGGAAGGACCGAACAGCTTCCAGCCCAACGATTCTATGCTCACCATGGCGgtacgt----agtctctt---gattttcttcgcgttttgatattccttgcag------------------------------------------------

upper sequence: Vv07s0005g02540.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ23527 (Selaginella moellendorffii), 5'ss of exon 1
TCGCGTTGGGGGCAATATAACCACCATGGAGGGGGACGGCTATCTCTGGGAGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCCgtaagttttgagcctcatctgggtttcactgacccacttattatctccgttgataggatcatattccttcttatattcccaccatttctgcttgcaatgc
  | || ||||| ||||| || ||  |||||  ||| || ||| | ||||||||||| || |||||||||||||||  |||||| |||||||||||||| ||| ||    || |||   ||  |||| |         ||||   | |                                                    
GAGAGTAGGGGGAAATATCACGACGCTGGAGTCGGATGGATATTTGTGGGAGGAAGGACCGAACAGCTTCCAGCCCAACGATTCTATGCTCACCATGGCGgtacgt----agtctc--ttgattttctcgcgttttgatattccttgcag--------------------------------------------------

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|352782141|gb|FQ470043.1|FQ470043
EST:     AGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCC                         GTGGATAGTGGTTTGAAGGATGATCTTGTTTTGGGGGATCCTAATGCACCT
genomic: AGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCCgtaagttttg ... tttcttgcagGTGGATAGTGGTTTGAAGGATGATCTTGTTTTGGGGGATCCTAATGCACCT
EST: gi|352782117|gb|FQ470019.1|FQ470019
EST:     AGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCC                         GTGGATAGTGGTTTGAAGGATGATCTTGTTTTGGGGGATCCTAATGCACCT
genomic: AGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCCgtaagttttg ... tttcttgcagGTGGATAGTGGTTTGAAGGATGATCTTGTTTTGGGGGATCCTAATGCACCT
EST: gi|352764041|gb|FQ467611.1|FQ467611
EST:     AGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCC                         GTGGATAGTGGTTTGAAGGATGATCTTGTTTTGGGGGATCCTAATGCACCT
genomic: AGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCCgtaagttttg ... tttcttgcagGTGGATAGTGGTTTGAAGGATGATCTTGTTTTGGGGGATCCTAATGCACCT
EST: gi|352764189|gb|FQ471169.1|FQ471169
EST:     AGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCC                         GTGGATAGTGGTTTGAAGGATGATCTTGTTTTGGGGGATCCTAATGCACCT
genomic: AGGAAGGCCCCAACAGCTTCCAGCCCTCCGATTCCATGCTCACCATGGCCgtaagttttg ... tttcttgcagGTGGATAGTGGTTTGAAGGATGATCTTGTTTTGGGGGATCCTAATGCACCT