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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCTGCTCAGAATGTAGAGAGCTCCCACTGCATCACGATGATGGAAGCTGTGAATGATGGGAAGGACCTTCATATCTCAGTCACCATGCCTTCCATTGAGgtaaatcattagcaacaccatccattctgttatgtttgcttgtagtagcagactaagaaagaaatattagactaaacatatggtatgggtgcatgcag

Basic information

species Vitis vinifera
transcript Vv04s0044g01740.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0044g01740.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA11G09330.1 (Glycine max), 5'ss of exon 3
TCCTGCTCAGAATGTAGAGAGCTCCCACTGCATCACGATGATGGAAGCTGTGAATGATGGGAAGGACCTTCATATCTCAGTCACCATGCCTTCCATTGAGgtaaatc--attagcaacaccatccattctg-ttatgtttgcttgtagtagcagactaagaaagaa-atattagac-taaacatatggtatgggtgcatgcag
 |||||||||||||| ||||| || |||||||| || ||||||||||||||||||||||| ||||||||||| ||||| || || ||||||||||||||||||   |  |||| | | |  |   ||| || |  |   | |||||  |     | |       || || ||||   | |   | | |||| | |  ||  | 
CCCTGCTCAGAATGTGGAGAGTTCTCACTGCATAACTATGATGGAAGCTGTGAATGATGGCAAGGACCTTCACATCTCTGTTACTATGCCTTCCATTGAGgtatgcccaattaacta-attacttattttggtcttaaattcttgttatgttttaatgctctttaatatgttaggggtgactttttagtatag-taaataga-

upper sequence: Vv04s0044g01740.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA01G36080.1 (Glycine max), 5'ss of exon 3
TCCTGCTCAGAATGTAGAGAGCTCCCACTGCATCACGATGATGGAAGCTGTGAATGATGGGAAGGACCTTCATATCTCAGTCACCATGCCTTCCATTGAGgtaaatc--attagcaac--------accatccattct-gttatgtttgcttgtagtagcag-actaagaaagaaatattagactaaacatatggtatgggtgcatgcag
 |||||||||||||| ||||| || |||||||| || ||||||||||||||||||||||| ||||||||||| ||||| || || ||||||||| ||||||||      ||||   ||          | |  ||||| |||||| ||   ||   |  ||  ||| ||     | | ||      |  | |  | || |          
CCCTGCTCAGAATGTGGAGAGTTCTCACTGCATAACCATGATGGAAGCTGTGAATGATGGCAAGGACCTTCACATCTCTGTTACTATGCCTTCCCTTGAGgtatgcttaattaattacttattttggtcttaaattcttgttatgctttaatgctctttcattacttaggggtgactcttcattatagtaaacagaatag----------

upper sequence: Vv04s0044g01740.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA09G32850.1 (Glycine max), 5'ss of exon 7
TCCTGCTCAGAATGTAGAGAGCTCCCACTGCATCACGATGATGGAAGCTGTGAATGATGGGAAGGACCTTCATATCTCAGTCACCATGCCTTCCATTGAGgtaa-atcattagcaacaccatccattctgttatgtttgcttgtagtagcagactaagaaagaaatattagactaaacatatg---gtatgggtgcatgcag-
|||||| |||||||| ||||| || ||||||||||| |||||||||||| | |||||||| |||||||||||| | || || |||||||| ||||||||||||  |   ||      | | |  ||  |||| |  ||  | |  ||||   | |    |     |||   | |  | || ||   | ||  ||  |||||  
TCCTGCCCAGAATGTGGAGAGTTCTCACTGCATCACCATGATGGAAGCTATCAATGATGGCAAGGACCTTCATGTTTCCGTGACCATGCCCTCCATTGAGgtaccactgtttctctgatcttaaatggtgttgtcctttttag--gtagagtattgttcatattttat-gtagtggatatttgtctgaattagtatatgcaag

upper sequence: Vv04s0044g01740.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA16G21620.1 (Glycine max), 5'ss of exon 4
TCCTGCTCAGAATGTAGAGAGCTCCCACTGCATCACGATGATGGAAGCTGTGAATGATGGGAAGGACCTTCATATCTCAGTCACCATGCCTTCCATTGAGgtaaatcattagcaacaccatccattctgttatgtttgcttgtagtagcagactaagaaagaaatattagactaaacatatg---gtatgggtgcatgcag-
|||||| |||||||| ||||| || ||||||||||| |||||||||||| | |||||||| |||||||||||  | || || |||||||| ||||||||||||   || |         |||     || | |  |   || |||    ||  ||    | |  |  |  | |  | ||  |   | ||  ||  |||||  
TCCTGCCCAGAATGTGGAGAGTTCTCACTGCATCACCATGATGGAAGCTATCAATGATGGCAAGGACCTTCACGTTTCGGTGACCATGCCCTCCATTGAGgta--ccactgtttctctgatcttaaatggtgttgtcctttttaggtagagtatagttcatattttatgaagtggatattcgtctgaattagtagatgcaag

upper sequence: Vv04s0044g01740.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: PP1S61_10V6.1 (Physcomitrella patens), 5'ss of exon 3
TCCTGCTCAGAATGTAGAGAGCTCCCACTGCATCACGATGATGGAAGCTGTGAATGATGGGAAGGACCTTCATATCTCAGTCACCATGCCTTCCATTGAGgta---aatcattagcaacaccatccattctgt-tatgtttgcttgtagtagcagactaagaaagaaatattaga--ctaaacat--atggtatgggtgcatgcag------------------------------------------------
||||||||| ||||| ||||| || || |||||||| |||||||| || |||||||||||  | ||| | ||| | || ||||| |||||||||||||||||     |   |  | ||  || ||| ||   | |    ||  |   |   |||   |  |||  |  | | ||   ||| ||    || ||     ||  ||                                                   
TCCTGCTCAAAATGTTGAGAGTTCACAGTGCATCACCATGATGGAGGCAGTGAATGATGGTCAAGACTTGCATGTTTCTGTCACTATGCCTTCCATTGAGgtgtgcgactttctgtaaagccgtccttttcctgtgcagtttttgagaactgcatgttgtgaac-acttctcaggtcctagaccctcattgttcaattgtttgtttgtttgttcatgacaagcttcttacgttccatgttgatgctctttgcag

upper sequence: Vv04s0044g01740.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: PP1S1_155V6.1 (Physcomitrella patens), 5'ss of exon 3
TCCTGCTCAGAATGTAGAGAGCTCCCACTGCATCACGATGATGGAAGCTGTGAATGATGGGAAGGACCTTCATATCTCAGTCACCATGCCTTCCATTGAGgtaaatcattagcaacaccatccattctg-ttatgtttgct--------tgtagt--agcagactaagaaagaaatattagactaaacatatggtatgggtgcatgcag----------------------------
||||||||||||||| |||||||| || |||||||| |||||||| ||||| ||||  ||  | ||| | ||| |||| || || ||||||||||||||||||  |  ||       | ||  |   || || |   ||||        || |||    | |||| |     ||||  || | || |    |  ||||  ||| |   |                            
TCCTGCTCAGAATGTTGAGAGCTCACAATGCATCACCATGATGGAGGCTGTCAATGGAGGTCAAGACTTGCATGTCTCTGTTACGATGCCTTCCATTGAGgtatgtacttgatttttcaattaacagtgcttttagatgctgcaataagtgaagtttgcccgactgattttaaaat-ctatattacagtgctattatgaatgcttatggatatttccattatttatttgttttacag

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|34548984|gb|CF517216.1|CF517216
EST:     TGAATGATGGGAAGGACCTTCATATCTCAGTCACCATGCCTTCCATTGAG                         GTGGGTACGGTGGGAGGTGGCACCCAACTGGCATCTCAGTCAGCTTGCCTG
genomic: TGAATGATGGGAAGGACCTTCATATCTCAGTCACCATGCCTTCCATTGAGgtaaatcatt ... gtgcatgcagGTGGGTACGGTGGGAGGTGGCACCCAACTGGCATCTCAGTCAGCTTGCCTG
EST: gi|34549509|gb|CF517741.1|CF517741
EST:     TGAATGATGGGAAGGACCTTCATATCTCAGTCACCATGCCTTCCATTGAG                         GTGGGTACGGTGGGAGGTGGCACCCAACTGGCATCTCAGTCAGCTTGCCTG
genomic: TGAATGATGGGAAGGACCTTCATATCTCAGTCACCATGCCTTCCATTGAGgtaaatcatt ... gtgcatgcagGTGGGTACGGTGGGAGGTGGCACCCAACTGGCATCTCAGTCAGCTTGCCTG