Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTCTTTTTGGCTTTACATTGTACCATGGGGTATGTACAAGACTGTGACCTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctgaaagtcctcctcccttaatttcttcccctcctctcttttcctggattcaatcaaaactcatagtcttaagtggggtggtggcag

Basic information

species Vitis vinifera
transcript Vv14s0006g01790.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0006g01790.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: LOC_Os01g32364.1 (Oryza sativa), 5'ss of exon 10
AACTCTTTTTGGCTTTACATTGTACCATGGGGTATGTACAAGACTGTGACCTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctgaaagtcctcctcccttaatttcttcccctcctctcttttcctggattcaatcaaaact-catagtcttaagtggggtggtgg-cag
|| |||   ||||||||||||||||| |||||| |||||||  |||| ||||| || |||||| ||||||| |||||  | ||  |  | || ||||| ||||||   |        | |    | | || |||   |       || |  ||   ||| | | |||  || |     |  |     |||   |||
AATTCTGACTGGCTTTACATTGTACCGTGGGGTTTGTACAAAGCTGTCACCTATGTCAAGGAGAAGTATGGTAACCCCACAATGTTTCTATCTGAAAATGgtacatctt------ttttccttgtaacttcctttttcattcacattgttttgtgatcactaagaacagcacaacaaaacataattcggttttcag

upper sequence: Vv14s0006g01790.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: LOC_Os07g46280.3 (Oryza sativa), 5'ss of exon 8
AACTCTTTTTGGCTTTACATTGTACCATGGGGTATGTACAAGACTGTGACCTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggct------gaaagtcctcc--tcccttaatttcttcccctcctctcttttcctggattcaatcaaaactcatagtctta--agtggggtggtggcag--
||||| |  |||||||||||||| |||||||| ||  ||||| |||||||||| || |||||    |||||||||||  | || ||| | || ||||| |||||    |      ||| |  | |   | |    | |  |     |  |  |  |     |  | ||  ||  || | | | | |  | ||  ||| |   |   
AACTCCTACTGGCTTTACATTGTGCCATGGGGAATCAACAAGGCTGTGACCTATGTAAAGGAAACATATGGAAACCCTACAATGATCCTTTCTGAAAATGgtactaattctatcagaatggtccctgattctccgaataatagttttgttgacaatgaaaagtattaaagaaggcttacactatgatcaatgttgtgctcttacag

upper sequence: Vv14s0006g01790.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA09G30910.1 (Glycine max), 5'ss of exon 10
AACTCTTTTTGGCTTTACATTGTACCATGGGGTATGTACAAGACTGTGACCTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctgaaagtc--ctcctcccttaatttcttcccctcctctcttttcctgg-attcaatca----aaactcatagtcttaagtggggtggtg-gcag
|| |||| ||||||||||| |||||||||||| ||||||||  |  |||  ||| | ||||| |  |||||||||||| || | ||| | || ||||| |||| | | |  |  ||   | ||  |||  ||  ||      ||   |     | |  |||  |      ||  |||| ||   |  |    |||   | ||
AATTCTTATTGGCTTTACAATGTACCATGGGGCATGTACAAATCATTGATGTACATAAAGGAACGTTATGGAAACCCAACTGTTATCTTATCTGAAAATGgta-acgttatatatcaatttcttgctttgttctttttttggcttggtgacattagtgttctgttgtttcaatgtcat-gtgacatattttatggcatgtag

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|349821518|gb|FQ408077.1|FQ408077
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|71867004|gb|DT016059.1|DT016059
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|77585036|gb|DV221603.1|DV221603
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|110426783|gb|EC993204.1|EC993204
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|352777638|gb|FQ466691.1|FQ466691
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|352778016|gb|FQ467069.1|FQ467069
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|349833335|gb|FQ416713.1|FQ416713
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|349820762|gb|FQ404136.1|FQ404136
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCANGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|349817382|gb|FQ405386.1|FQ405386
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCACAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|352777869|gb|FQ466922.1|FQ466922
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|349811362|gb|FQ407588.1|FQ407588
EST:     TACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACC
genomic: TACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAA-CGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACC
EST: gi|349826361|gb|FQ417858.1|FQ417858
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|351013683|gb|FQ433835.1|FQ433835
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|71867277|gb|DT016332.1|DT016332
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|351028613|gb|FQ446286.1|FQ446286
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|351017081|gb|FQ424508.1|FQ424508
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|349807775|gb|FQ402166.1|FQ402166
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|351029000|gb|FQ435001.1|FQ435001
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|349815167|gb|FQ410390.1|FQ410390
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACAC
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACAC
EST: gi|351029862|gb|FQ427702.1|FQ427702
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
EST: gi|77578566|gb|DV218076.1|DV218076
EST:     CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACG                         GCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA
genomic: CTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctg ... gtggtggcagGCATGGACGATCCAGGGAACGTGACACTCCCCATGGCATTGCACGACACCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACTCTTTTTGGCTTTACATTGTACCATGGGGTATGTACAAGACTGTGACCTACGTGAAGGAGCAGTATGGAAACCCACCTATAATCATCTCAGAAAACGgtacaggctgaaagtcctcctcccttaatttcttcccctcctctcttttcctggattcaatcaaaactcatagtcttaagtggggtggtggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG