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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTGATCTTGTGGAAAAGAGTTGCCATCAAATCCACAAGGAAACCATGGTTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTGgtatctctctctctctctctctctccagattgtctttccccaatgccaaaataaatgacattgcttcttttcaatctacttcttgcag

Basic information

species Vitis vinifera
transcript Vv07s0031g01970.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0031g01970.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA05G32030.1 (Glycine max), 5'ss of exon 11
--GCTTGATCTTGTGGAAAAGAGTTGCCATCAAATCCACAAGGAAACCATGGTTCACAAAGCTGCCCTGAAAGTTTAAAAA-----TTATGATGTGACC-----AACTACTGgtatctctctctctctctctctctccagattgtctt-tccccaatgcc----aaaataaatgacattgcttcttttcaa-tctacttcttgcag-------------------------------------------------------------------------
  ||||||||||||||| |||||||| |||||||| ||||||||||||||||| || ||||||||  |||| |||||| ||       ||  ||| ||      |  |  ||     | || |||| |  |||    || ||| | || || |   ||       |   |  ||      |        || |||  ||  || |                                                                          
TTGCTTGATCTTGTGGAGAAGAGTTGTCATCAAATACACAAGGAAACCATGGTCCATAAAGCTGCTTTGAAGGTTTAAGAAGGTTCACATACTGTCACAGgtaaagtttttgtcccttttccctctgttgctcctctcacattttgttatctctgttgttttaagagggagttggggacacggggagggaagtctggtttatggaaaatggtagaatcgtgactgttcggtgttcacatctcaagtatttgcgataatgcttgtttctggtaattgcag

upper sequence: Vv07s0031g01970.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA04G39520.1 (Glycine max), 5'ss of exon 11
GCTTGATCTTGTGGAAAAGAGTTGCCATCAAATCCACAAGGAAACCATGGTTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACC------AACTACTGgtatctctctctctctctctctc-----tccagattgtctttccccaatgccaaaataaatgacattgcttcttt-tcaatctacttcttgcag------
      ||||||||| ||||| ||||||||||| ||||||||||||||||| || ||||||||| |||| |||||| ||     || | ||       |  ||| ||||   ||    || |   |||      | |  ||    | |     | |    |      | | | |        | ||  |    ||||  |      
------TCTTGTGGAGAAGAGCTGCCATCAAATACACAAGGAAACCATGGTGCATAAAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAGgtacagcttgtccttttcatcttaaattttcttatgaattatttttgaagagggagggcgagccctggtgcagcggtaaagttgtgccttggtgacttgt

upper sequence: Vv07s0031g01970.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA06G15330.1 (Glycine max), 5'ss of exon 11
GCTTGATCTTGTGGAAAAGAGTTGCCATCAAATCCACAAGGAAACCATGGTTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTGgtat---ctctctctctctctctctctccagattgtctt---------tccccaatgccaaaataaatgacattgctt---cttttcaatctact------tcttgcag----------------------------------------------------------------------------------
      ||||||||| ||||| ||||||||||| ||||||||||||||||| || ||||||||| |||| |||||| || |    ||| || |   |  | |||     |    | ||  | ||    || ||| ||||         |    || |    | ||  |||||          |||  ||| ||        || || ||                                                                                  
------TCTTGTGGAGAAGAGCTGCCATCAAATACACAAGGAAACCATGGTGCATAAAGCTGCCTTGAAGGTTTAAGAAGTTCCCTGTCACTATTAAAAGTTATAGgtacagcttgtccttttcatctcaaattttcttatgaatcagtttttaaagagggagtagctgacaagaagcaaattttgtaatatatggaagtatcatgaagatgatgatgatgataatgatggttcgtttctgaacttttcctttatgattgatcataatgcttctatgtctggtaactgcag

upper sequence: Vv07s0031g01970.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA08G15340.1 (Glycine max), 5'ss of exon 11
GCTTGATCTTGTGGAAAAGAGTTGCCATCAAATCCACAAGGAAACCATGGTTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTG-
      ||||||||| || ||||| ||||| || ||||||||||||||||| |||||||||||  |||| |||||| ||   |    | | ||  |||||           |||| | || || |  |        |||    || ||| ||||    || | ||   || |   |  ||      |        | |||  ||  || |                                                          
------TCTTGTGGAGAAAAGTTGTCATCAGATACACAAGGAAACCATGGTCCACAAAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatttgtcccttttccctctgttgctcctctcacattttcttattgccgccattttaagagggagttggggacacggaagggaagtctggtttatgaaaaatggtagaattgtgactcttcacatctcaagtaatgcttgtttctggtaaatgcag

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|110729885|gb|EE106329.1|EE106329
EST:     TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTG                         GGAGGCCCAAACTCTGTTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
genomic: TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTGgtatctctct ... cttcttgcagGGAGGCCCAAACTCTGTTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
EST: gi|110364122|gb|EC927769.1|EC927769
EST:     TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTG                         GGAGGCCCAAACTCTGTTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
genomic: TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTGgtatctctct ... cttcttgcagGGAGGCCCAAACTCTGTTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
EST: gi|110416190|gb|EC982152.1|EC982152
EST:     TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTG                         GGAGGCCCAAACTCTGTTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
genomic: TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTGgtatctctct ... cttcttgcagGGAGGCCCAAACTCTGTTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
EST: gi|110387763|gb|EC952457.1|EC952457
EST:     TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTG                         GGAGGCCCAAACTCTGCTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
genomic: TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTGgtatctctct ... cttcttgcagGGAGGCCCAAACTCTGTTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
EST: gi|351012778|gb|FQ430341.1|FQ430341
EST:     TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTG                         GGAGGCCCAAACTCTGTTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
genomic: TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTGgtatctctct ... cttcttgcagGGAGGCCCAAACTCTGTTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
EST: gi|110684729|gb|EE062340.1|EE062340
EST:     TTCACAAAGCTGCCCTGAAAGTTTAAAA-TTATGATGTGACCAACTACTG                         GGAGGCCCAAACTCTGCTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
genomic: TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTGgtatctctct ... cttcttgcagGGAGGCCCAAACTCTGTTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
EST: gi|110387558|gb|EC952238.1|EC952238
EST:     TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTG                         GGAGGCCCAAACTCTGTTGGTTTCGTGGACTGAGCTAATTGATCAAATATT
genomic: TTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTGgtatctctct ... cttcttgcagGGAGGCCCAAACTCTGTTGGTTTCGTGGACTGAGCTAATTGATCAAATATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTTGATCTTGTGGAAAAGAGTTGCCATCAAATCCACAAGGAAACCATGGTTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTGgtatctctctctctctctctctctccagattgtctttccccaatgccaaaataaatgacattgcttcttttcaatctacttcttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC