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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caagcatgggttgttggtctagtaatctcttattaatgttgtactgatgatattctggaatataactgatgagtgcattctttcatgcttttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATGGAGGAGGATGCATGGTCACAGAGAGTAGTCAGGTGGTCCGGCAGCGTTT

Basic information

species Vitis vinifera
transcript Vv19s0177g00300.t01
intron # 4
splice site 3'
intron type U2

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|71880947|gb|DT030002.1|DT030002
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|110714546|gb|EE091579.1|EE091579
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|30300650|gb|CB977444.1|CB977444
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTNTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|71879653|gb|DT028708.1|DT028708
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|110417550|gb|EC983615.1|EC983615
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|33405610|gb|CF211237.1|CF211237
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|110357684|gb|EC921351.1|EC921351
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|71877621|gb|DT026676.1|DT026676
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|33405689|gb|CF211316.1|CF211316
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|110398825|gb|EC965301.1|EC965301
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|71879150|gb|DT028205.1|DT028205
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|71877606|gb|DT026661.1|DT026661
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|71877663|gb|DT026718.1|DT026718
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|45771430|gb|CN007282.1|CN007282
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|110382211|gb|EC938786.1|EC938786
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|110380178|gb|EC945423.1|EC945423
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|110389184|gb|EC954003.1|EC954003
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|71880372|gb|DT029427.1|DT029427
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
EST: gi|110428059|gb|EC994520.1|EC994520
EST:     ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAG                         GCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG
genomic: ATGCTCTTGGAGCTGCCATCGCAATCCTTGGAACTTTCTTGTATTCTCAGgtatttgctc ... ttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgatattctggaatataactgatgagtgcattctttcatgcttttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATGGAGGAGGATGCATGGTCACAGAGAGTAGTCAGGTGGTCCGGCAGCGTTT
                              cattctttcatgcttt  CT-rich tract
             aatataact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caagcatgggttgttggtctagtaatctcttattaatgttgtactgatgatattctggaatataactgatgagtgcattctttcatgcttttccttgcagGCAAAGCAGTGAGGAAGCTGGAGTTGGAATTTAGGTTTCCGGGCTGCTATGGAGGAGGATGCATGGTCACAGAGAGTAGTCAGGTGGTCCGGCAGCGTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- -gcatggg
- - - - - -tgttggt
- - - - - - - - - - - - - - - - - - - - - -ctgatga
- - - - - - - - - - - - - - - - - - - - - - - - - -attctgg