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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCAGATTCTTTTAAGATGCTAACACGGCTAAGAGTCTTACGGCTGGATCAAAATCCTCTAGAAGTGCCACCAAGACATGTTGCTGAAATGGGTGCACAGgtaattcttcttacctgtactctctgtgattgtttggtatctgttcttaaggttaataatcgtttggtcctcttag

Basic information

species Vitis vinifera
transcript Vv07s0031g02310.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0031g02310.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA16G21580.1 (Glycine max), 5'ss of exon 2
TCCAGATTCTTTTAAGATGCTAACACGGCTAAGAGTCTTACGGCTGGATCAAAATCCTCTAGAAGTGCCACCAAGACATGTTGCTGAAATGGGTGCACAGgtaatt--cttcttacctgtactctctgtgattgtttggtatctgttcttaaggttaataatcgtttggtcctcttag-----------------------
||| || ||||||| |||||| || ||  || | ||| |     ||||  | |||||||| ||| | || ||||||||||||||||||| ||| |||||||||| |  || | |  ||  | |      | || |  ||| |   |  |     |||  ||   | |  |    |||                        
TCCTGACTCTTTTAGGATGCTCACTCGTTTACGTGTCCTGAAAGTGGAAGAGAATCCTCTTGAAATACCTCCAAGACATGTTGCTGAAAAGGGAGCACAGgtaactaactgcctttctcaatttaaccaggtt-tagggtgttcatattgctatttacaaacactgtttttagtttaaaaagaaaacatatactcactcta
















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|51050468|gb|CO818567.1|CO818567
EST:     AAAATCCTCTAGAAGTGCCACCAAGACATGTTGCTGAAATGGGTGCACAG                         GCTGTAGTTCAGTACATGGCTGAACTGGTCGCAAAGAGGGAGGTCAAATCA
genomic: AAAATCCTCTAGAAGTGCCACCAAGACATGTTGCTGAAATGGGTGCACAGgtaattcttc ... gtcctcttagGCCGTAGTTCAGTACATGGCTGAACTGGTCGCAAAGAGGGAGGTCAAATCA
EST: gi|349831099|gb|FQ420769.1|FQ420769
EST:     AAAATCCTCTAGAAATGCCACCAAGACATGTTGCTGAAATGGGTGCACAG                         GCTGTAGTTCAGTACATGGCTGAACTGGTCGCAAAGAGGGAGGTCAAATCA
genomic: AAAATCCTCTAGAAGTGCCACCAAGACATGTTGCTGAAATGGGTGCACAGgtaattcttc ... gtcctcttagGCCGTAGTTCAGTACATGGCTGAACTGGTCGCAAAGAGGGAGGTCAAATCA
EST: gi|352776607|gb|FQ474909.1|FQ474909
EST:     AAAATCCTCTAGAAGTGCCACCAAGACATGTTGCTGAAATGGGTGCACAG                         GCCGTAGTTCAGTACATGGCTGAACTGGTCGCAAAGAGGGAGGTCAAATCA
genomic: AAAATCCTCTAGAAGTGCCACCAAGACATGTTGCTGAAATGGGTGCACAGgtaattcttc ... gtcctcttagGCCGTAGTTCAGTACATGGCTGAACTGGTCGCAAAGAGGGAGGTCAAATCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCAGATTCTTTTAAGATGCTAACACGGCTAAGAGTCTTACGGCTGGATCAAAATCCTCTAGAAGTGCCACCAAGACATGTTGCTGAAATGGGTGCACAGgtaattcttcttacctgtactctctgtgattgtttggtatctgttcttaaggttaataatcgtttggtcctcttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT