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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgtcccacacacttaaatcttcattttgtatttgtatggcacttcctttcttttttcctccttataaaactagcttagtttatctttgcattacaagcattatgattatggtggattttatagaaagttttatcttaacttaattatggcagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGATGTGGAAAATCGCTTGACAAAGGATTTCTTGATTCTT

Basic information

species Vitis vinifera
transcript Vv04s0008g06480.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g07905.2 (Oryza sativa), 3'ss of exon 5
gttgtcccacacacttaaatcttcattttgtatttgtatggc--acttcctttcttttttcctccttataaaactagcttagtttatctttgcattacaagcattatgattatggtggattttatagaaagttttatcttaacttaattatggcagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGATGTGGAAAATCGCTTGACAAAGGATTTCTTGATTCTT
                     || ||| || ||   |||  |  |  |      | | |  | ||||| | ||  |  |      || |   ||||   ||  || |  | ||| |   ||||          || |  |   ||  |  |  |||||| ||||||||||||||||| || ||||| || ||||  ||||||||   ||| || |||||||||||||||
-------------------gttttattctggatccatatctcttatatgtagcatctctagcaccttagacaatca-ttcgccccatat---cattctcaggcttttcttcatgtttagttttcctactgaaattgttctg-tttggtcctt-cagTGCAAATCGAGGTGATAGCTTGGACCGCAACATCGATGATGAAAATCGTCGGACGAAAGATTTCTTGATTCTT

upper sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G000393_T01 (Zea mays), 3'ss of exon 5
gttgtcccacacacttaaatcttcattttgtatttgtatggcacttcctttcttttttcctccttataaaactagcttagtttatctttgcattacaagcattatgattatggtggattttatagaaagtt--ttatcttaacttaattatg---gcagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGATGTGGAAAATCGCTTGACAAAGGATTTCTTGATTCTT
||| |       |  || | |||    ||     || ||    |||  ||     |||     |   |     |     ||||    ||  |||| ||  ||       ||  |  || |         ||  |||| |  || |  ||      ||||||| ||||||||||||||||| || || ||||||||||  ||||||||   ||||||||| ||||||||||||
gttttgttctggatctatacctttgagttac---tgcatcattcttagttcagaatttaacaatatcattgtcattcccgttttctattatattagaaaaatataatccattttccatctctcgttttattgattatgtatacctttttggacctgcagTGCAAATCGAGGTGATAGCTTGGACCGTAATATTGATGATGAAAATCGGCAGACAAAGGACTTCTTGATTCTT

upper sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G14000.2 (Glycine max), 3'ss of exon 5
gttgtcccacacacttaaatct-----tcatttt-gtatttgtatggcacttcctttcttttttcctccttataaaactagcttagtttatctttgcattacaagcattatgattatggtggattttataga---aagttttatcttaacttaattat--------ggcagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGATGTGGAAAATCGCTTGACAAAGGATTTCTTGATTCTT
|||   |||| ||||||    |       ||||| ||| | | |||    |  ||||    | |  |  ||||  | ||   ||| |||  ||| |   ||     ||  |   |  | |     | || |    ||  ||  |  |  |  ||| ||        | ||||||||||||||||||||||||||||||||||||||| | ||||||||||   |||||||||||| ||||||||
gtttctccactcacttatccttattagctattttagtactcgcatgat-ttctctttaagctatagtggttatttatcttcttta-tttcccttggtgctaatctaatagtttgtgagataacaatcatgggttcaaacttatttatggccaaataatttctaattgacagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCACAACAAAGGATTTCCTGATTCTT

upper sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G32180.1 (Glycine max), 3'ss of exon 6
gttgtcccacacacttaaatcttcattttgtatttgtatggcacttcctttcttttttcctccttataaaactagcttagtttatctttgcattacaagcattatgattatggtggattttatagaaagttttatcttaacttaattatggcagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGATGTGGAAAATCGCTTGACAAAGGATTTCTTGATTCTT
                                                                                                                                                                     ||||||||||||||||||||||||||| |||||| |||   |||||||||||| ||||||||
---------------------------------------------------------------------------------------------------------------------------------------------------------------------gtgatagcttagatcgcaatattgatgagGAAAACCGCACAACAAAGGATTTCCTGATTCTT

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|71856228|gb|DT005283.1|DT005283
EST:     NNNNNNCTTGAGGAAAGAGGAGTGGTCATACGTTTCGTAATTGGTCGGAG                         TGCTAATCGAGGTGATAGCTTAGATCGCAATATTGATGTGGAAAATCGCTT
genomic: AAAAAACTTGAGGAAAGAGGAGTGGTCATACGTTTCGTAATTGGTCGGAGgttgtcccac ... attatggcagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGATGTGGAAAATCGCTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattatgattatggtggattttatagaaagttttatcttaacttaattatggcagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGATGTGGAAAATCGCTTGACAAAGGATTTCTTGATTCTT
                 attttatagaaagttt  TA-rich tract