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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagtaggcctcttagttggttctttattgctgagtatatatttttttttttggaatatttttttggaatctggtggataccttaacttttgttcaatgttatttttaaag

Basic information

species Vitis vinifera
transcript Vv01s0011g05370.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g05370.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA08G04890.1 (Glycine max), 5'ss of exon 8
GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagtaggcctcttagttggttctttattgctgagtatatatttttttttttggaatatttttttggaatctggtggataccttaacttttgttcaatgttatttttaaag
||| ||||||||||| |||||||| || ||||| ||||| || |||||||||||||||||||| || | | || || | | | || ||| | || ||| | | | || || ||| ||| || | |||||| |||
GTCAATTTTTGATTTTGAATCTATCAGGAAACTGCTGTCATCTCCTAAATTCACATTCTGgtatattttatggatgttcttttaaattgtgatatagaatattcttagttcgtttct-----tcatcccaaagcctaatga------taaatttc-tttgacgttatt---gaag

upper sequence: Vv01s0011g05370.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA05G34790.1 (Glycine max), 5'ss of exon 8
GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagtaggcctcttagttggttctttattgctgagtatatatttttttttttggaatatttttttggaatctggtggataccttaacttttgttcaatgttatttttaaag
||| ||||||||||| |||||||| || ||||| ||||| || |||||||||||||||||||| || | || || || || | | || ||| | || || | | | | |||| | || ||| || || |
GTCAATTTTTGATTTTGAATCTATCAGGAAACTGCTGTCATCTCCTAAATTCACATTCTGgtatattttatggctgttgttttaaactgtgatatagaatattcttagttcttcatcccaaaacct-----aatc--ataaatttctttgacgttattgag--------------
















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|30132705|gb|CB918044.1|CB918044
EST:     GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
EST: gi|161709381|gb|FC059250.1|FC059250
EST:     ATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATTGGGAGTTGGTGGAGCTTATGCAAAGCGAATATTT
genomic: ATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCA-T-GGAGTTGGTGGAGCTTATGCAAAGCGAATATTT
EST: gi|30305224|gb|CB982018.1|CB982018
EST:     GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
EST: gi|351015349|gb|FQ445633.1|FQ445633
EST:     GATTTCCAATCTATCCAAAAGCCGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
EST: gi|32270931|gb|CD720090.1|CD720090
EST:     ATTTCCNATCTATCCAAAAGCTGCTCTCATCACNCAAA-TTCACATTCTG                         TTATGATGCACTGCAT
genomic: ATTTCCAATCTATCCAAAAGCTGCTCTCATCAC-CAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCAT
EST: gi|30125147|gb|CB910486.1|CB910486
EST:     GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
EST: gi|30136409|gb|CB921747.1|CB921747
EST:     GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
EST: gi|30305289|gb|CB982083.1|CB982083
EST:     GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
EST: gi|30125386|gb|CB910725.1|CB910725
EST:     GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
EST: gi|349810189|gb|FQ401635.1|FQ401635
EST:     GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
EST: gi|349818554|gb|FQ403189.1|FQ403189
EST:     GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
EST: gi|349827300|gb|FQ421573.1|FQ421573
EST:     GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
EST: gi|349810979|gb|FQ405967.1|FQ405967
EST:     GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
EST: gi|349810186|gb|FQ401632.1|FQ401632
EST:     GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: GATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
EST: gi|161715091|gb|FC063627.1|FC063627
EST:     AGCTGCTCTCATCACCAAAATTCACATTCTG                         TTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT
genomic: AGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagta ... atttttaaagTTATGATGCACTGCATGGAGTTGGTGGAGCTTATGCAAAGCGAATATTTGT

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCGATTTTTGATTTCCAATCTATCCAAAAGCTGCTCTCATCACCAAAATTCACATTCTGgtatatagtaggcctcttagttggttctttattgctgagtatatatttttttttttggaatatttttttggaatctggtggataccttaacttttgttcaatgttatttttaaag

- - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - GCTGCT