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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatgtcattcctgttcaataagctggcaactgcatggctcaatgagaaagcaataattacatccatgtcctgtttgcagGTATAGGAATTACCCACCTGAGCAACTTGTAGACATTGTAGCAAGAATTCTAGCCATGGTACCCCCTTGGACTCGTGTTTATAGAGTTCAGAGGGATATT

Basic information

species Vitis vinifera
transcript Vv17s0000g10190.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os04g40840.1 (Oryza sativa), 3'ss of exon 5
----------------------------gtaaaatgtcattcctg--ttcaataagctggcaactgcatgg-----ctcaatgagaaagcaataattac--atccatgtcctgtttgcagGTATAGGAATTACCCACCTGAGCAACTTGTAGACATTGTAGCAAGAATTCTAGCCATGGTACCCCCTTGGACTCGTGTTTATAGAGTTCAGAGGGATATT
                             || | ||  | || ||  |||| |    ||     |   | |      | | ||||||   |     | |  ||   |||  ||||| ||| ||  | || || |||||||| |  || || || ||||| |||||||||||| |||||||||| |||||||| || |||||  | || || || ||||| 
gtacttattttatctagcacttgatattctagattgctagtcttgtgttcactgttgtgtttgttctctagaactttttagtgagaacttaggccctgccaatgtttgttgtgttt-cagATACCGAAACTATCCACCTGAACTTCTGGTGGATATTGTTGCAAGAATTCTATCCATGGTACCACCTTGGACACGAGTTTACCGTGTACAAAGAGATATC

upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G36790.1 (Glycine max), 3'ss of exon 5
----------------------------------------gtaaaatgtc---attcctgttcaataagctggcaactgcat----ggctcaatgagaaagcaataattacatccat-gtcctgtttgcagGTATAGGAATTACCCACCTGAGCAACTTGTAGACATTGTAGCAAGAATTCTAGCCATGGTACCCCCTTGGACTCGTGTTTATAGAGTTCAGAGGGATATT
                                         | |||  ||   |||    |   |  |  |   |  |   |     |  |  |   ||   || ||  | || |||     |  ||| |||||||| || || ||||||||||||||||| |||||| ||||||| || || || ||||||||||| ||||| |||||||||||||||||| ||||||||
gtatatatcaaatgttttcttattattggactgctttttcctcaaacatctcaattttcatcttagtatttattagttttttttaatgtcctgtagaaattaaaaaaaaaaattcattaatgtaattgtagGTATAGAAACTATCCACCTGAGCAACTTGTGGACATTATAGCAAGGATCCTTGCAATGGTACCCCCATGGACACGTGTTTATAGAGTTCAGCGGGATATT

upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G18150.1 (Glycine max), 3'ss of exon 5
-----------------------------------------------gtaaaatgtcattcctgt-tcaataagctggcaactgcatggctcaatgagaaagcaataattacatccatgtcctgtttgcagGTATAGGAATTACCCACCTGAGCAACTTGTAGACATTGTAGCAAGAATTCTAGCCATGGTACCCCCTTGGACTCGTGTTTATAGAGTTCAGAGGGATATT
                                                | || | ||||    || |  || || |      |  ||||       |||||| || ||  ||||  || |     ||| |||||||| || || ||||| ||||||||||| |||||| ||||||| || || || ||||||||||| ||||| |||||||||||||||||| ||||||||
gtatatatcaattttttttaatattggactgctttttcctcaaacttctcaattttcatcttagtatttattagttttt--ttaaatggtctgt--agaaagtaaaaaa-acattaatat---aattgtagGTATAGAAACTATCCACCAGAGCAACTTGTGGACATTATAGCAAGGATCCTTGCAATGGTACCCCCATGGACACGTGTTTATAGAGTTCAGCGGGATATT

upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G50320.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaaaatgtcattcctgttcaataagctggcaactgcatggctcaatgagaaagcaataattacatccatgtcctgtttgcagGTATAGGAATTACCCACCTGAGCAACTTGTAGACATTGTAGCAAGAATTCTAGCCATGGTACCCCCTTGGACTCGTGTTTATAGAGTTCAGAGGGATATT
|||  ||    ||  |||| || |          |||||| | ||| |  ||||    ||| | ||  |     |   ||||||||  | ||||| ||||||||||| ||||| || || || ||||| |||||  |||||||||| || ||||| ||||| |||||||||||| | ||||||
gtacgatactcttg-tgtttaa-agatgaatgcttgcatgtcacaacggaaaaggttaaatcatattgaaaattt--ctgcagGTACCGAAATTATCCACCTGAGCAGCTTGTGGATATAGTTGCAAGGATTCTCTCCATGGTACCTCCATGGACACGTGTATATAGAGTTCAGCGTGATATT

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|110386507|gb|EC951107.1|EC951107
EST:     ACACTTGTAATTCGTGGAACTGGGCTTTATGAGCTTTGGAAAACGGGCAG                         GTATAGGAATTACCCACCTGAGCAACTTGTAGACATTGTAGCAAGAATTCT
genomic: ACACTTGTAATTCGTGGAACTGGGCTTTATGAGCTTTGGAAAACGGGCAGgtaaaatgtc ... ctgtttgcagGTATAGGAATTACCCACCTGAGCAACTTGTAGACATTGTAGCAAGAATTCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcaactgcatggctcaatgagaaagcaataattacatccatgtcctgtttgcagGTATAGGAATTACCCACCTGAGCAACTTGTAGACATTGTAGCAAGAATTCTAGCCATGGTACCCCCTTGGACTCGTGTTTATAGAGTTCAGAGGGATATT
                                           tcctgttt  CT-rich tract
                           aataattacat  TA-rich tract