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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGACTCGGGGAACAGGTTGCTGCATCTGGAATTTGTGTTTGGAACCCTGCTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtctccctctttctttctattgcaaaacatgtatttattgcatctgacatacttgaattatatgatcag

Basic information

species Vitis vinifera
transcript Vv11s0016g00830.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g00830.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G139533_T01 (Zea mays), 5'ss of exon 8
AGGACTCGGGGAACAGGTTGCTGCATCTGGAATTTGTGTTTGGAACCCTGCTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgt-ccttgtctccctctttct----ttctattgcaaaacatgtatttattgcatctgacatacttga-attatatgatcag---------------------------
 || || ||  | || ||||||||||| || || |  || |||||||| |||||||||||||| |||||  |||||||  |||  ||||||||||| |||||  ||| ||||||  | ||     ||   ||  |  |   | | || |||||    ||||  |||| ||  | ||  | |                           
TGGTCTGGGAAAGCAAGTTGCTGCATCCGGTATATCAGTCTGGAACCCAGCTTTCGATGTTACTCCAGCAAATCTGATCACTGCAATCATAACAGAAAAGgtatcttctctccccttctcgaatgtttctttatatgatcagcaatt-ttgcagagaacattgttgatatgttttgggctgactaggggttttttgattgatttgtag
















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|34362089|gb|CF403674.1|CF403674
EST:     CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAG                         GGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
EST: gi|110374656|gb|EC939575.1|EC939575
EST:     CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAG                         GGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
EST: gi|34543372|gb|CF511604.1|CF511604
EST:     CTTTCGATGTTACCCCAGCTGATCTGGTAGCTGGTACCATAACAGAGAAG                         GGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
EST: gi|30133085|gb|CB918424.1|CB918424
EST:     CTTTCGATGTTACCCCAGCTAATCTGATAGCTGGTATCATAACAGAGAAG                         GGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
EST: gi|110428947|gb|EC995431.1|EC995431
EST:     CTTCCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAG                         GGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
EST: gi|110409927|gb|EC975602.1|EC975602
EST:     CTTTCGATGTTACCCCAGCTAATCTGATAGCTGGTATCATAACAGAGAAG                         GGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
EST: gi|110395880|gb|EC961554.1|EC961554
EST:     CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAG                         GGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
EST: gi|110363814|gb|EC927433.1|EC927433
EST:     CTTTCGATGTTACCCCAGCTAATCTGATAGCTGGTATCATAACAGAGAAG                         GGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
EST: gi|110391575|gb|EC956560.1|EC956560
EST:     CTTTCGATGTTACCCCAGCTAATCTGATAGCTGGTATCATAACAGAGAAG                         GGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
EST: gi|30252173|gb|CB969724.1|CB969724
EST:     CTTTCGATGTTACCCCAGTTAATCTGATAGCTGGTATCATAACAGAGAAG                         GGTGTAATTATTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
EST: gi|34543287|gb|CF511519.1|CF511519
EST:     CTTTCGATGTTACCCCAGCTGATCTGGTAGCTGGTACCATAACAGAGAAG                         GGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
EST: gi|110420049|gb|EC986310.1|EC986310
EST:     CTTTCGATGTTACCCCAGCTAATCTGATAGCTGGTATCATAACAGAGAAG                         GGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
EST: gi|110366059|gb|EC929706.1|EC929706
EST:     CTTTCGATGTTACCCCAGCTAATCTGATAGCTGGTATCATAACAGAGAAG                         GGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC
genomic: CTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtct ... atatgatcagGGTGTAATTACTAAGACAGGTGATGTTTTCGACATCAAGGATTTCATACAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGACTCGGGGAACAGGTTGCTGCATCTGGAATTTGTGTTTGGAACCCTGCTTTCGATGTTACCCCAGCTGATCTGATAGCTGGTATCATAACAGAGAAGgtccttgtctccctctttctttctattgcaaaacatgtatttattgcatctgacatacttgaattatatgatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT