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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAAACAGCACACTGTTACTAGAGATAAACAAGAGACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttctaaatgatgattcttatccattaactgagccttcctctgtgtttgattagttttcacttgttaatgatgccctttattttttatccatgtt...

Basic information

species Vitis vinifera
transcript Vv13s0019g04190.t01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g04190.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA20G31980.1 (Glycine max), 5'ss of exon 12
AAGAAACAGCACACTGTTACTAGAGATAAACAAGAGACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttctaaatgatgattcttatccattaactgagccttcctctgtgtttgattagttttcacttgttaatgatgccctttattttttatccatgtt----
||||| ||  | ||||| ||| |||||||| |||| |||||| | ||||| ||||| ||||||||||| |||||||| ||| ||||||  |  |       || || |       |   |||    |||     |||  |||  ||||   |    | || |     | ||  || ||| | |||    
AAGAAGCAAAAGACTGTGACTCGAGATAAAAAAGAAACAGAGTTTATAGCCCGTGGTCGCCATGATCCTTGTGTTGTCCCAAGAGgttaataaccctgccttg-ttttagagtgctgtttgaattatccctca-gttcaatt--ttttttttcaaaattgtttgatctaataattcatctaagtttctc

upper sequence: Vv13s0019g04190.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA10G35560.1 (Glycine max), 5'ss of exon 12
AAGAAACAGCACACTGTTACTAGAGATAAACAAGAGACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttctaaatgatgattcttatccattaactgagccttcctctgtgtttgattagttttcacttgttaatgatgccctttattttttatccatgtt---
||||| ||  | ||||| ||| |||||||| |||| |||||| | ||||| ||||| ||||||||||| |||||||| ||| ||||||  |  ||   ||    || |||     |   ||     | ||| | | |   ||  | |    ||   ||   |     | ||  ||  || | |||   
AAGAAGCAAAATACTGTGACTCGAGATAAAAAAGAAACAGAGTTTATAGCCCGTGGTCGCCATGATCCTTGTGTTGTCCCAAGAGgttaataactc--tggctttttttagt-gctgtttgtattattctcagaggtcattttttatgtttttcaaaactcttgatataataattcgtctaagttgct
















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|110372418|gb|EC936581.1|EC936581
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|30326726|gb|CD009988.1|CD009988
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|156737328|gb|EV241442.1|EV241442
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|32249612|gb|CD715431.1|CD715431
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATG
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATG
EST: gi|30131232|gb|CB916571.1|CB916571
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|71883350|gb|DT032405.1|DT032405
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|32247169|gb|CD712988.1|CD712988
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|352785536|gb|FQ475539.1|FQ475539
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCGGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|110395213|gb|EC960849.1|EC960849
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|29783210|gb|CB349240.2|CB349240
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|352776660|gb|FQ465458.1|FQ465458
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|110703011|gb|EE079483.1|EE079483
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|32248621|gb|CD714440.1|CD714440
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|110378991|gb|EC944156.1|EC944156
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|352777955|gb|FQ467008.1|FQ467008
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|110371972|gb|EC936111.1|EC936111
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|156737322|gb|EV241443.1|EV241443
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|29783264|gb|CB349323.2|CB349323
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCCCGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
EST: gi|30324763|gb|CD008025.1|CD008025
EST:     GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAG                         CGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA
genomic: GACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttct ... gacattacagCGGTACCAATGGTGGAAGCTGCAGTAGCCCTGGTGCTTGTGGATCAGTTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGAAACAGCACACTGTTACTAGAGATAAACAAGAGACAGAGCTAATAGCTCGTGGCCGCCATGATCCATGTGTTGTTCCACGAGgtttgtttctaaatgatgattcttatccattaactgagccttcctctgtgtttgattagttttcacttgttaatgatgccctttattttttatccatgtt

- - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcctc