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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attcctggtcttgtcccattttatgatttcttttttcttttttcttttttctcatggcctgtatagtgaattcttgaatctaaacttctgtttcttgcagTAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTATTTTATATGAAGGAAAAACTCATACAGATTTATTTCTTCAA

Basic information

species Vitis vinifera
transcript Vv14s0006g00430.t01
intron # 9
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|110388405|gb|EC953154.1|EC953154
EST:     ATTATCCTTTTCCATGGAACAATGGATAATTCTATACCATCAGATTCGAG                         TAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
genomic: ATTATCCTTTTCCATGGAACAATGGATAATTCTATACCATCAGATTCCAGgtttgttctc ... tttcttgcagTAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
EST: gi|110714548|gb|EE091581.1|EE091581
EST:     ATTATCCTTTTCCATGGAACAATGGATAATTCTATACCATCAGATTCCAG                         TAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
genomic: ATTATCCTTTTCCATGGAACAATGGATAATTCTATACCATCAGATTCCAGgtttgttctc ... tttcttgcagTAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
EST: gi|83275657|gb|DV939665.1|DV939665
EST:     ATTATCCTTTTCCATGGAACAATGGATAATTCTATACCATCAGATTCGAG                         TAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
genomic: ATTATCCTTTTCCATGGAACAATGGATAATTCTATACCATCAGATTCCAGgtttgttctc ... tttcttgcagTAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
EST: gi|110411087|gb|EC976788.1|EC976788
EST:     ATTATCCTTTTCCATGGAACAATGGATAATTCTATACCATCAGATTCCAG                         TAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
genomic: ATTATCCTTTTCCATGGAACAATGGATAATTCTATACCATCAGATTCCAGgtttgttctc ... tttcttgcagTAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
EST: gi|27582217|gb|CB004912.1|CB004912
EST:     ATTATCCTTTTCCATGGAACAATGGATAATTCTATACCATCAGATTCGAG                         TAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
genomic: ATTATCCTTTTCCATGGAACAATGGATAATTCTATACCATCAGATTCCAGgtttgttctc ... tttcttgcagTAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
EST: gi|30328980|gb|CD012242.1|CD012242
EST:     ATTATCCTTTTCCATGGAACAATGGATAATTCTATACCATCAGATTCGAG                         TAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
genomic: ATTATCCTTTTCCATGGAACAATGGATAATTCTATACCATCAGATTCCAGgtttgttctc ... tttcttgcagTAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
EST: gi|34364287|gb|CF405872.1|CF405872
EST:     AATGGATAATTCTATACCATCAGATTCCAG                         TAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT
genomic: AATGGATAATTCTATACCATCAGATTCCAGgtttgttctc ... tttcttgcagTAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttctcatggcctgtatagtgaattcttgaatctaaacttctgtttcttgcagTAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTATTTTATATGAAGGAAAAACTCATACAGATTTATTTCTTCAA
                                atctaaa  putative branch site (score: 3)
                                       cttctgtttcttgc  CT-rich tract
                               aatctaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attcctggtcttgtcccattttatgatttcttttttcttttttcttttttctcatggcctgtatagtgaattcttgaatctaaacttctgtttcttgcagTAAAGCTTTTGCAGATGCGCTTGAAGGCGTAGGTGCTGAAGCTGAACTTATTTTATATGAAGGAAAAACTCATACAGATTTATTTCTTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
-ttcctgg
- - - - - -tgtccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gcctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acttctg