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'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGTACTTCATGAAGGCTCGAGCATGGAAAAATATTGGGATGGTCTAAGGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCGgttagtgagacaattaagtgtattctcttaactttcttaatcatcctttctcacttagtggtagtgtatactacaagggctgccttgtacatattctatt...

Basic information

species Vitis vinifera
transcript Vv05s0102g01110.t01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0102g01110.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: LOC_Os10g37210.1 (Oryza sativa), 5'ss of exon 12
TGATGTACTTCATGAAGGCTCGAGCATGGAAAAATATTGGGATGGTCTAAGGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCGgttagtgagacaattaagtgtattctcttaactttcttaatcatcctttctcacttagtggtagtgtatactacaagggctgccttgtacatattctatt----------------------------------------------------
  |    |||  |||||| ||    ||||||   ||||||||   ||| | ||| ||||||||||||||||| ||| ||| ||||||||||||| | || ||  ||||     ||   |  |  ||          ||| |    ||   | | |     ||  |  |  ||      |      | | ||  |||| ||                                                    
CAAAACTCTTGTTGAAGGATCTTCGATGGAACTCTATTGGGAGAATCTCAAGAAGTCATGGATATGGGAAGAGCTTTATAGAGCTCGGAATTACAGACCAgtatgtgattatgtttgttacagacttcctgaacatttattttgtctaattaagtattccgtcatacaagcttttgaagtgaggatatgcagtttctgttttttcctttctgaagctattgagcagacagatttatttatattctgttacag

upper sequence: Vv05s0102g01110.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GRMZM2G032222_T03 (Zea mays), 5'ss of exon 12
TGATGTACTTCAT-GAAGGCTCGAGCATGGAAAAATATTGGGATGGTCTAAGGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCGgttagtgagacaattaagtgtattctctt--aactttcttaatcatcctttctcacttagt----ggtagtgtatact-acaagggctgccttgtacatattctatt----------------------------------------------------
  | || | || | ||||| ||    ||||||   || |||||    || | ||| |||||||||||||||||||||||||||||| |||||||  | || ||  |||      ||| |  |  | | ||  |||   ||||    |  | |||   | | |     ||  ||||  || ||| |||       | | ||   ||  |                                                    
-CAAGTCCCTCGTTGAAGGATCTTCGATGGAACTGTACTGGGAGAACCTCAAGAAGTCATGGATATGGGAAGAACTTCATAAAGCTAGGAATTATAGACCAgtatgtggttattttatggttgattttttcaaacaaacttagctttggtatctggttaaatatctagttctgtaagctgacaggggaaagaaggcaaatccgcttatctttttctgaacatactaagttgaatgtgtatttattacttttttcttccag

upper sequence: Vv05s0102g01110.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA15G03360.1 (Glycine max), 5'ss of exon 12
TGATGTACTTCATGAAGGCTCGAGCATGGAAAAATATTGGGATGGTCTAAGGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCGgttagtgagacaattaagtgtattctcttaactttcttaatcatcctttctcacttagtggtag-tgtatactacaagggctgccttgtacatattctatt--
|| || |||| |||||||       ||||| |  |||||||||| | | || ||||||||||| ||||||||| | |||||| ||||||| ||||| || ||||||||  ||||| | ||   | | ||   | |||    | | ||| || | | |    ||  |   |  |          | |  |||||   ||||   
TGGTGCACTTAATGAAGGTCTAGATATGGATATGTATTGGGATGCTTTGAGAAATTCATGGATTTGGGAAGAATTGCATAAATCTCGGAACTACCGACCAgttagtgaagcaattcattgccattttttttgtctctc--ccttgcttgctgattgaagattacctaagttttctggccatctcatcttacatgg-ctatcta

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|30251567|gb|CB969300.1|CB969300
EST:     GGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCG                         GCATTTGAGTATGGGCTCATTCCTGGTTTGGCTTTAAGTGCTTTAGAACA
genomic: GGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCGgttagtgaga ... tttcttgtagGCATTTGAGTATGGGCTCATTCCTGGTTTGGCTTTAAGTGCTTTAGAACA
EST: gi|30251648|gb|CB969381.1|CB969381
EST:     GGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCG                         GCATTTGAGTATGGGCTCATTCCTGGTTTGGCTTTAAGTGCTTTAGAACA
genomic: GGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCGgttagtgaga ... tttcttgtagGCATTTGAGTATGGGCTCATTCCTGGTTTGGCTTTAAGTGCTTTAGAACA
EST: gi|30251671|gb|CB969404.1|CB969404
EST:     GGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCG                         GCATTTGAGTATGGGCTCATTCCTGGTTTGGCTTTAAGTGCTTTAGAACA
genomic: GGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCGgttagtgaga ... tttcttgtagGCATTTGAGTATGGGCTCATTCCTGGTTTGGCTTTAAGTGCTTTAGAACA
EST: gi|110364442|gb|EC924185.1|EC924185
EST:     GGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCG                         GCATTTGAGTATGGGCTCATTCCTGGTTTGGCTTTAAGTGCTTTAGAACA
genomic: GGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCGgttagtgaga ... tttcttgtagGCATTTGAGTATGGGCTCATTCCTGGTTTGGCTTTAAGTGCTTTAGAACA
EST: gi|30251591|gb|CB969324.1|CB969324
EST:     GGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCG                         GCATTTGAGTATGGGCTCATTCCTGGTTTGGCTTTAAGTGCTTTAGAACA
genomic: GGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCGgttagtgaga ... tttcttgtagGCATTTGAGTATGGGCTCATTCCTGGTTTGGCTTTAAGTGCTTTAGAACA
EST: gi|30251604|gb|CB969337.1|CB969337
EST:     GGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCG                         GCATTTGAGTATGGGCTCATTCCTGGTTTGGCTTTAAGTGCTTTAGAACA
genomic: GGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCGgttagtgaga ... tttcttgtagGCATTTGAGTATGGGCTCATTCCTGGTTTGGCTTTAAGTGCTTTAGAACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATGTACTTCATGAAGGCTCGAGCATGGAAAAATATTGGGATGGTCTAAGGAATTCATGGATATGGGAAGAACTTCATAAAGCTCGGAATTACCGTCCGgttagtgagacaattaagtgtattctcttaactttcttaatcatcctttctcacttagtggtagtgtatactacaagggctgccttgtacatattctatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagacaa