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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcttctgctttcttggaaaacagacgaaggtttctttgtttccattttctttttatgatcctgtttttgtgtttcaatatattctacttgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTGTGTGGCATGCAACGGACTTTGCAGATGGTGAACTTAAGGATGAGCTTTT

Basic information

species Vitis vinifera
transcript Vv08s0217g00030.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0217g00030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G07140.1 (Arabidopsis thaliana), 3'ss of exon 2
tttcttctgctttcttggaaaacagacgaaggtttct---ttgtttccat-tttctttttatgatcctgtttttgtgtttcaatatat---tctacttgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTGTGTGGCATGCAACGGACTTTGCAGATGGTGAACTTAAGGATGAGCTTTT
  | |  |   |  |||||  ||        |||| |   |||  ||    | | | |||| | | ||||||   | | |     |||   |||  |  || |||||||    ||   ||||  || || || |||  ||| || || || || ||||||||||| ||    |||||||| ||||||||||| ||||||||||||||
-gtataatttctatttggactactttgtgttgtttttgagttgcatctggatctgtatttaggttactgtttccttatctagtcttatgcttctgatatttctgcagTTAAATCGGGCATGAGTGTTCAGGAACACGTTGGGAATGAAAAGTCATGTGTGTGGCACGCTCGTGACTTTGCTGATGGTGAACTCAAGGATGAGCTTTT
















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|351041202|gb|FQ444179.1|FQ444179
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|351047599|gb|FQ454996.1|FQ454996
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|110369567|gb|EC933730.1|EC933730
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|71868411|gb|DT017466.1|DT017466
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|351018625|gb|FQ424732.1|FQ424732
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|87584547|gb|DY473671.1|DY473671
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|110412080|gb|EC977815.1|EC977815
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|351051724|gb|FQ449538.1|FQ449538
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|294966892|gb|GW839767.1|GW839767
EST:     GCTTGTTATGCGCCAATCGAAAACCCTAAAGATCTGCGCTAATCATCTAN                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|349821588|gb|FQ408147.1|FQ408147
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|349807515|gb|FQ401930.1|FQ401930
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|351041377|gb|FQ447504.1|FQ447504
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|351054857|gb|FQ462887.1|FQ462887
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|110694419|gb|EE071510.1|EE071510
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|110693539|gb|EE069860.1|EE069860
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|351043061|gb|FQ443903.1|FQ443903
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|110393884|gb|EC959440.1|EC959440
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|34320471|gb|CF373225.1|CF373225
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|349826967|gb|FQ419058.1|FQ419058
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|349815553|gb|FQ400709.1|FQ400709
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|71866739|gb|DT015794.1|DT015794
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|349810047|gb|FQ398672.1|FQ398672
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGCGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|349808979|gb|FQ406829.1|FQ406829
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|110700918|gb|EE077995.1|EE077995
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|161717051|gb|FC068459.1|FC068459
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|351043448|gb|FQ444048.1|FQ444048
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
EST: gi|349812667|gb|FQ409826.1|FQ409826
EST:     GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAG                         TTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG
genomic: GCTTGTTATGCGCCAATCGAAGACCCTAAAGATCTGCGCTAATCATCTAGgttacttttt ... tgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttctttttatgatcctgtttttgtgtttcaatatattctacttgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTGTGTGGCATGCAACGGACTTTGCAGATGGTGAACTTAAGGATGAGCTTTT
                                      ttctactt  CT-rich tract
                            tttcaatatattcta  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttcttctgctttcttggaaaacagacgaaggtttctttgtttccattttctttttatgatcctgtttttgtgtttcaatatattctacttgttatgcagTTCTTCCGACTATGACAGTGCAAGAGCACAGTGGAAACGACAAATCTTGTGTGTGGCATGCAACGGACTTTGCAGATGGTGAACTTAAGGATGAGCTTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- -cttctgc
- - - - - - - - ggaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgttt