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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGTGTGGAGAAATACGTGATGTTATCTTCTCTGACAATGGAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttttcttttatgtagtgtggtctttcctatctaaatgtttttttttgcatttgcccatggtttagccaaattgaagacatttaaatttcacaa...

Basic information

species Vitis vinifera
transcript Vv01s0150g00610.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0150g00610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os03g63450.2 (Oryza sativa), 5'ss of exon 3
GTTGGTGTGGAGAAATACGTGATGTTATCTTCTCTGACAATGGAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgt------------gtggcttttcttttatgtagtgtggtctttcctatctaaatgtttttttttgcatttgc-ccatggtttagccaaattgaagacatttaaatttcacaa
| ||||||||||| | ||||||||||| | | |||||||||| | ||||| ||| |||||||||| ||||||||||| | ||||||||||| || || | | || | || |||| | ||| || | || | ||| | ||| | | ||| | | ||
GCTGGTGTGGAGAGGTCCGTGATGTTATTTACACTGACAATGGGAAAGTGACAGTGATATATCGTGTCACAGTACGAGGAACAGATGGAGAGgtaagtttaaaggtgttgcctcttcttgaagtcttgtgattttttctctggaagcttcactttctctattgccattctcacttacatatacatgggatgg-------------

upper sequence: Vv01s0150g00610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os03g63450.1 (Oryza sativa), 5'ss of exon 3
GTTGGTGTGGAGAAATACGTGATGTTATCTTCTCTGACAATGGAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG-
||||||||| | ||||||||||| | | |||||||||| | ||||| ||| |||||||||| ||||||||||| | ||||||||| |||| || | | || | || |||| | ||| || | || | ||| | ||| ||| | || || | | || | |||
----GTGTGGAGAGGTCCGTGATGTTATTTACACTGACAATGGGAAAGTGACAGTGATATATCGTGTCACAGTACGAGGAACAGATGGAGAGGTAAGTTTAAAGgtgttgcctcttcttgaagtcttgtgattttttctctggaagcttcactttctctatt-gccattctcacttacatatacatgggatgggccctcttcaat

upper sequence: Vv01s0150g00610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM5G868664_T01 (Zea mays), 5'ss of exon 3
GTTGGTGTGGAGAAATACGTGATGTTATCTTCTCTGACAATGGAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttttc----ttttatgtagtgtggtctt-tcctatctaaatg--tttttttttgcatttgcc------catggtttagccaaattgaa--gacatttaaatttcacaa-------------------------------------------------------------------
|||||||||||||| | ||||||||||||| ||||| ||||||| || || ||||||||||| || | | | ||| ||||||||||||| || || |||| | || | || || | || || | ||| | ||| || | |||||| | | || || | | ||| | | |
GTTGGTGTGGAGAAGTTCGTGATGTTATCTATTCTGAGAATGGAACTGTAACCGTGGTATATCGAGTGATACTTAAAGGAACTGATGGAGAGgtaaactttctcccttttttctctacggaagttttgttgtacctgcacaaatttaaagtggcacttttcaaattatatggttcacactaactgcaccatcttttttttcttttgaaatcaactaaaatacattgaaaacaatcgtctatattaactgatgcaattgcatctttttgagttag

upper sequence: Vv01s0150g00610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA20G39380.1 (Glycine max), 5'ss of exon 1
--------GTTGGTGTGGAGAAATACGTGATGTTATCTTCTCTGACAATGGAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttttcttttatgtagtgtggtctttcc--tatctaaatgtttttttttgcatttgcccatggtttagccaaattgaagacatttaaatttcacaa
|||||||||| || ||||||||||| || ||||| |||||||| ||| ||||| ||||| ||| |||| ||||| || |||||||||||||| | | ||| | | | | ||| ||| | || ||| | | | ||| | || | | || | ||| || |
CGCCCCAGGTTGGTGTGGCGAGATACGTGATGTCATTTTCTCCGACAATGGCTCCGTAACTGTCGTATACCGTCTTACTGTACGGGGATCTGATGGAGAGgtcagccagccttttcctttcttacttttcttctagtatttcaa-atttctatcaccctttaattgtctcttc-ttgattcttcgatttctaacttgttgga

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|110730505|gb|EE107661.1|EE107661
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTANAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|27755329|gb|CB036084.1|CB036084
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|83274626|gb|DV938723.1|DV938723
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|30127142|gb|CB912481.1|CB912481
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|27755332|gb|CB036087.1|CB036087
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|351021519|gb|FQ446063.1|FQ446063
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|27755334|gb|CB036089.1|CB036089
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|71872275|gb|DT021330.1|DT021330
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110380501|gb|EC945772.1|EC945772
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|32460606|gb|CD801780.1|CD801780
EST:     TGACTGTGGTATATCGTGTTACAGTGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACCGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: TGACTGTGGTATATCGTGTTACA--GTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110396020|gb|EC961694.1|EC961694
EST:     ACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: ACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110697819|gb|EE075231.1|EE075231
EST:     CGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: CGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110382421|gb|EC939438.1|EC939438
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110700959|gb|EE078071.1|EE078071
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAAAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110400063|gb|EC966605.1|EC966605
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110387237|gb|EC951891.1|EC951891
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTTTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110397145|gb|EC962868.1|EC962868
EST:     TCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: TCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110409583|gb|EC975249.1|EC975249
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|351026810|gb|FQ436463.1|FQ436463
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110383667|gb|EC948050.1|EC948050
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|32461216|gb|CD802390.1|CD802390
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|34362920|gb|CF404505.1|CF404505
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110715660|gb|EE093965.1|EE093965
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110398620|gb|EC965089.1|EC965089
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|34319852|gb|CF372606.1|CF372606
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|349820141|gb|FQ404863.1|FQ404863
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|351024248|gb|FQ423671.1|FQ423671
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110365672|gb|EC929043.1|EC929043
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110374352|gb|EC939041.1|EC939041
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|46910258|gb|CN545633.1|CN545633
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTTTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|349828318|gb|FQ416271.1|FQ416271
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|110366297|gb|EC930122.1|EC930122
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|32458145|gb|CD799319.1|CD799319
EST:     AAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGATTCTGATGGAGAG                         GCTCACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: -AAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
EST: gi|349821699|gb|FQ413015.1|FQ413015
EST:     GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAG                         GCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT
genomic: GAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttt ... tttgatgcagGCACACCGTGAATCAACTGGAACAGTATTACCAACTGATGGACATGTAGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGGTGTGGAGAAATACGTGATGTTATCTTCTCTGACAATGGAAGCGTGACTGTGGTATATCGTGTTACAGTACGAGGTTCTGATGGAGAGgtgtggcttttcttttatgtagtgtggtctttcctatctaaatgtttttttttgcatttgcccatggtttagccaaattgaagacatttaaatttcacaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaattga