Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAACTATGAGAAGGTCTGTGAAATGTGCCACATTACACTCAATAAAATTGCTATATTCGGTGATAATGGCACTATTACTCCTGGAGGTGTAAGGATTGgttagttgagatctcatcacttgccaatttgctaatttttcacaggaatactgtgtaatgacaatttagtttttattagagtttaatgtatttatgaatgtcccag

Basic information

species Vitis vinifera
transcript Vv12s0034g02380.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0034g02380.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA12G29170.1 (Glycine max), 5'ss of exon 3
AAGAACTATGAGAAGGTCTGTGAAATGTGCCACATTACACTCAATAAAATTGCTATATTCGGTGATAATGGCACTATTACTCCTGGAGGTGTAAGGATTGgttagttgagatctcatcacttgccaatttgctaatttttcacaggaatactgtgt-aatgacaatttagtttttattagagtttaatgtatttatgaatgtcccag
||    |||||||||||||||||||  || || |||||  | |||||||||||||| || || || ||||| ||||| | |||||||||||||||  | ||| |||     | |  |  |||  |   ||   | |  ||   ||||||| | | |       | |||          ||| ||| |||  | |||   |  | |||
AAATTTTATGAGAAGGTCTGTGAAACATGTCATATTACTTTGAATAAAATTGCTATTTTTGGCGACAATGGAACTATAATTCCTGGAGGTGTAAGAGTAGgtgagtaatagtttattatcttttctgctttgca-tgcttggaaggaatattttattggctgtactttctcacgaggcagatttttatgc-tgtatttgttactcag

upper sequence: Vv12s0034g02380.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA08G20050.3 (Glycine max), 5'ss of exon 3
AAGAACTATGAGAAGGTCTGTGAAATGTGCCACATTACACTCAATAAAATTGCTATATTCGGTGATAATGGCACTATTACTCCTGGAGGTGTAAGGATTGgttagttgagatctcatcacttgccaatttgcta-atttttcaca---ggaatactgtgtaatg-acaatttagtttttattagagtttaatgtatttatgaatgtcccag
|||   ||||||||||| |||||||  || || |||||  | |||||||||||||| || || || ||||| ||||| | |||||||||||||||  | ||| |||  | |  | || |    | ||| |  ||   ||| ||     |||||| |   |   |   | |||          ||| ||| |||| | |||   |  | |||
AAGTTTTATGAGAAGGTATGTGAAACATGTCATATTACTTTGAATAAAATTGCTATTTTTGGCGACAATGGAACTATAATTCCTGGAGGTGTAAGAGTAGgtgagt-aatagtttattatgctcaaatcttttatgctttgcatgcttggaatatttaattgggtgtactttctcccgaggcagatttttatgt-tgtatttgttactcag
















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|352778342|gb|FQ465652.1|FQ465652
EST:     TGCTATATTCGGTGATAATGGCACTATTACTCCTGGAGGTGTAAGGATTG                         GTACTCCTGCTATGACATCAAGAGGTTGTCTAGAGGCCGATTTTGAGACTA
genomic: TGCTATATTCGGTGATAATGGCACTATTACTCCTGGAGGTGTAAGGATTGgttagttgag ... aatgtcccagGTACTCCTGCTATGACATCAAGAGGTTGTCTAGAGGCCGATTTTGAGACTA
EST: gi|352763878|gb|FQ465328.1|FQ465328
EST:     TGCTATATTCGGTGATAATGGCACTATTACTCCTGGAGGTGTAAGGATTG                         GTACTCCTGCTATGACATCAAGAGGTTGTCTAGAGGCCGATTTTGAGACTA
genomic: TGCTATATTCGGTGATAATGGCACTATTACTCCTGGAGGTGTAAGGATTGgttagttgag ... aatgtcccagGTACTCCTGCTATGACATCAAGAGGTTGTCTAGAGGCCGATTTTGAGACTA
EST: gi|22015420|gb|BQ800454.1|BQ800454
EST:     TGCTATATTCGGTGATAATGGCACTATTACTCCTGGAGGTGTAAGGATTG                         GTACTCCTGCTATGACATCAAGAGGTTGTCTAGAGGCCGATTTTGAGACTA
genomic: TGCTATATTCGGTGATAATGGCACTATTACTCCTGGAGGTGTAAGGATTGgttagttgag ... aatgtcccagGTACTCCTGCTATGACATCAAGAGGTTGTCTAGAGGCCGATTTTGAGACTA
EST: gi|110360829|gb|EC924233.1|EC924233
EST:     TGCTATATTCGGTGATAATGGCACTATTACTCCTGGAGGTGTAAGGATCG                         GTACTCCTGCTATGACATCAAGAGGTTGTCTAGAGGCCGATTTTGAGACAA
genomic: TGCTATATTCGGTGATAATGGCACTATTACTCCTGGAGGTGTAAGGATTGgttagttgag ... aatgtcccagGTACTCCTGCTATGACATCAAGAGGTTGTCTAGAGGCCGATTTTGAGACTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGAACTATGAGAAGGTCTGTGAAATGTGCCACATTACACTCAATAAAATTGCTATATTCGGTGATAATGGCACTATTACTCCTGGAGGTGTAAGGATTGgttagttgagatctcatcacttgccaatttgctaatttttcacaggaatactgtgtaatgacaatttagtttttattagagtttaatgtatttatgaatgtcccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG