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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGATGACAACACTATTGATTTTATTGGTCATGCAATAGCGCTTCATAGAGATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatgcatagggttcatattatacttctttcccttggttttgaattccctcacaatagaagttccatcatttttgtgagcttccatgaagttcttccttttgactatgtgatag

Basic information

species Vitis vinifera
transcript Vv05s0094g01550.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0094g01550.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA08G13300.3 (Glycine max), 5'ss of exon 6
CGATGACAACACTATTGATTTTATTGGTCATGCAATAGCGCTTCATAGAGATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatgcatagggttcatattatactt----ctttcccttggttttgaattccctcacaatagaagttccatc-atttttgtgagcttccatgaagttcttccttttgactatgtgatag
 ||||| |||||||| || || |||||||||||  | ||||||||||| |||||  ||||| |   |||||| ||| | || ||||||||||||||||||||   || |  |  |||||  |||   ||||     ||   ||  ||  || ||||      | |  || || | ||  ||    |  | | |||| |  |   |  | ||  |||  || |||
TGATGATAACACTATAGACTTCATTGGTCATGCTTTGGCGCTTCATAGTGATGATCGCTACTTGGCTGAGCCAGCACTGGACACTGTGAAGAGAATGAAGgt---aagtttactgggttattat-gcacttgtaatttattctcagtcgtggattcttcttaattgaaaatttcttctgttccatttggttcccattagctatattttgtttcctacttg-tag
















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|110707813|gb|EE084638.1|EE084638
EST:     ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAG                         CTTTATTCGGAGTCT
genomic: ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCT
EST: gi|110701800|gb|EE079788.1|EE079788
EST:     ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAG                         CTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
genomic: ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
EST: gi|110700674|gb|EE077534.1|EE077534
EST:     ATGACTGCTACCTAAACGAGCCTGCAATTGATACTGTGAAGAGAATGAAG                         CTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
genomic: ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
EST: gi|110732501|gb|EE107845.1|EE107845
EST:     ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAG                         CTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
genomic: ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
EST: gi|27584731|gb|CB007426.1|CB007426
EST:     ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAG                         CTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCGTACATTTAT
genomic: ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
EST: gi|110724401|gb|EE100197.1|EE100197
EST:     ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAG                         CTTTATTCGGAGTCTATTGCACGTTTTCAAGGAAGATCACCATACATTTAT
genomic: ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
EST: gi|110371128|gb|EC934907.1|EC934907
EST:     ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAG                         CTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
genomic: ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
EST: gi|110685725|gb|EE062694.1|EE062694
EST:     GACTGCTACCTAAATGAGCCTGCA-TTNGATACTGTGAAAGAGA-TGAAG                         G
genomic: GACTGCTACCTAAATGAGCCTGCAATT-GATACTGTGAA-GAGAATGAAGgtgaaaaatg ... tatgtgatag-
EST: gi|110685725|gb|EE062694.1|EE062694
EST:     GACTGCTACCTAAATGAGCCTGCA-TTNGATACTGTGAAAGAGA-TGAAG                         G
genomic: GACTGCTACCTAAATGAGCCTGCAATT-GATACTGTGAA-GAGAATGAAGgtgaaaaatg ... tatgtgatag-
EST: gi|110687369|gb|EE064718.1|EE064718
EST:     ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAG                         CTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
genomic: ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
EST: gi|110701029|gb|EE078211.1|EE078211
EST:     GACTGCTACCNTAA-TGAGCCTGCAATTGATACTGTGAAGAGAAATGA-G                         CTTTATTCGGAGTCTATTGCACGTTTTCAAAGAGGATCACCATACATTTA
genomic: GACTGCTACC-TAAATGAGCCTGCAATTGATACTGTGAAGAGAA-TGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTA
EST: gi|110687516|gb|EE065012.1|EE065012
EST:     ATGACTGCTACCTANATGAGCCTGCAATTGATACTGTGAAGAGAATGAAG                         CTTTATTCGGAGTCTATTGCACGTTTTTCA-GGANGATCACCATACATTTA
genomic: ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCTATTGCACGTTTT-CAAGGAGGATCACCATACATTTA
EST: gi|110700715|gb|EE077610.1|EE077610
EST:     ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAG                         CTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
genomic: ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
EST: gi|33406756|gb|CF212383.1|CF212383
EST:     ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAG                         CTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
genomic: ATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
EST: gi|37183843|gb|CF603197.1|CF603197
EST:     CCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAG                         CTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
genomic: CCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAGTCTATTGCACGTTTTCAAGGAGGATCACCATACATTTAT
EST: gi|110690999|gb|EE068597.1|EE068597
EST:     TGACTGCTACCTAAATGACGC-TGCAATTGATACCGTGAAAAGAATGAAA                         CTTTATTCGGAG
genomic: TGACTGCTACCTAAATGA-GCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatg ... tatgtgatagCTTTATTCGGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGATGACAACACTATTGATTTTATTGGTCATGCAATAGCGCTTCATAGAGATGACTGCTACCTAAATGAGCCTGCAATTGATACTGTGAAGAGAATGAAGgtgaaaaatgcatagggttcatattatacttctttcccttggttttgaattccctcacaatagaagttccatcatttttgtgagcttccatgaagttcttccttttgactatgtgatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA