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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaactattattttgatttgcttcgtgaattcatctgatgcactttaacattatttgcttataaatgaattgattaaaatattgctggaataattgacag

Basic information

species Vitis vinifera
transcript Vv16s0100g00530.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0100g00530.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT5G51940.1 (Arabidopsis thaliana), 5'ss of exon 2
ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaactattattttgatttgcttcgtgaattcatctgatgcacttta-acattatttgcttataaatgaattgattaaaatattgctggaataattgacag
|||||||||||||||  |||||||||||||||||||| |   | ||  ||||  ||||  |     |      |  |||   ||| |||   || | ||    ||   ||  ||      || || |  ||        
ATATGAGGATGAGCCAGCAGAGCCTGAGATTGAAgtaagtt-caatattttttctttgtataagagacatggttattgcttattatacaactttcggtttctgattggttttttt-----tttcttgtgtag-------
















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|110374189|gb|EC938793.1|EC938793
EST:     ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAA                         GAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
genomic: ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaact ... taattgacagGAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
EST: gi|110686792|gb|EE064832.1|EE064832
EST:     ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAA                         GAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
genomic: ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaact ... taattgacagGAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
EST: gi|110368625|gb|EC932613.1|EC932613
EST:     GAGGATGAGCCGCCAGAGCCTGAGATTGAA                         GAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
genomic: GAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaact ... taattgacagGAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
EST: gi|26265984|gb|CA817047.1|CA817047
EST:     ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAA                         GAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
genomic: ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaact ... taattgacagGAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
EST: gi|110413522|gb|EC979311.1|EC979311
EST:     ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAA                         GAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
genomic: ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaact ... taattgacagGAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
EST: gi|110386849|gb|EC951479.1|EC951479
EST:     ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAA                         GAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
genomic: ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaact ... taattgacagGAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
EST: gi|110365638|gb|EC928962.1|EC928962
EST:     ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAA                         GAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
genomic: ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaact ... taattgacagGAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
EST: gi|51050339|gb|CO818499.1|CO818499
EST:     ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAA                         GAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
genomic: ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaact ... taattgacagGAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
EST: gi|26263262|gb|CA814325.1|CA814325
EST:     ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAA                         GAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
genomic: ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaact ... taattgacagGAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
EST: gi|26262322|gb|CA813385.1|CA813385
EST:     ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAA                         GAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
genomic: ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaact ... taattgacagGAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
EST: gi|26263998|gb|CA815061.1|CA815061
EST:     ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAA                         GAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT
genomic: ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaact ... taattgacagGAGGGTGCAGAGGAAGAAGCCGAAAATAATAACAATGAAGATGTTCCAGAT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATATGAGGATGAGCCGCCAGAGCCTGAGATTGAAgtatgaaactattattttgatttgcttcgtgaattcatctgatgcactttaacattatttgcttataaatgaattgattaaaatattgctggaataattgacag

- - GAGGAT
- -  AGGATG