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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttggctaaatgatcttaaaatttaaggcatagtcttttcatatcattcaaaggttctgccactttgccaaaacagcatgtatttcaagtactag...

Basic information

species Vitis vinifera
transcript Vv07s0129g00410.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os03g10940.1 (Oryza sativa), 5'ss of exon 6
ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatg------tttggctaaatg-atcttaaaat-ttaaggcatagtcttttcatat-cattcaaaggttctgccactttgccaaaacagcatgtatttcaagtactag--------------------------
|| |||||||||||||||||||| ||||| || || || ||||| ||||||||||| || |||||||| ||      ||    || | | ||    |  | || | ||  ||  ||| ||  |  ||    |  |     | ||         | | |  |||| || | | |||                          
ATATTTCGCAAGGAACCATTCTTCTATGGCCACGATAACCATGACCAGCTTGTCAAAATAGCCAAGgtttgctacagttcacatagacgcatgcgcatgtgtttatgctgagcatttgcacttgtatctgtatatgtctgctctgctttctgcctgaaaatattgcaggcattagcatattgatgaactatacctgagcag

upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 6
ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttggcta--------aatgatct-taaaatttaaggcatagtcttttcatatcattcaaaggttctgccactttg--ccaaaacagcatgtatttcaagtactag
|| |||||||| ||||| |||||||||||||||||||| ||||||||||||||||| || || ||||||   |  |  |        ||| || | |||   ||  |  ||  |  | |||    |  ||    ||       || |  ||| |  |  || ||||           
ATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatccgtcatggtttgcaattatttataagtgtttggttatcttgctgtcaccatacacagtaatttcatgttttggttccagattatgatatatt-----------

upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA01G39950.1 (Glycine max), 5'ss of exon 6
ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgta-tgtt-----tggct---aaatgatcttaaaatttaaggcatagtcttttcatatcattcaaaggttctgccactttg--ccaaaacagcatgtatttcaagtactag
|| |||||||| ||||| |||||||||||||||||||| ||||||||||||||||| || || |||||| | |      ||| |   || || |  ||||  ||  |  ||  |  | |||    |  ||    ||       || |  | | |  |  || ||||           
ATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaatatccatcgtggtttgcaattgcttataaatgtttggttatcttgctgtcactgtacacagtaatttcatgtgttagttcgagactatgatatatt-----------

upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA17G17790.1 (Glycine max), 5'ss of exon 6
ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgta-tgttt-----ggctaaatgatct-taaaatttaaggcatagtcttttcatatcattcaaaggttctgccactttgccaaaacagcatgtatttcaagtactag
|| |||||||||||||| || ||||||||||| ||||| ||||||||||||||||| || || ||||||   |||     || | | | || | || ||||  |    ||   | || ||    | ||| | |  || ||  ||        ||  | |   |  | || |  
ATATTTCGCAAGGAACCTTTTTTTTATGGTCACGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatttatggaggttcagtaatgtatagaattgcaaaattatcttgttgatgctgtgcaa-gttaatgtcatgtttt------agtttctgactataatatttt

upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA05G22250.1 (Glycine max), 5'ss of exon 6
ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgta-tgttt-----ggctaaatgatcttaaaatttaaggcatagtctt-ttcatatcattcaaaggttctgccactttgccaaaacagcatgtatttcaagtactag
|| |||||||||||||| |||||||||||||| ||||| ||||| ||||||||||| || || ||||||   |||     || | |    | |  ||| ||     ||  |||| || ||    | |||      |    | |||       ||  | |   |  | || |  
ATATTTCGCAAGGAACCTTTCTTTTATGGTCACGACAACCATGACCAGCTTGTCAAAATAGCTAAGgtaacatttatggaggttcagcagtgtctaaaattgcaaaattatcttgttgatgctgtgcaag----ttaatgccttgttt---tagtttctgactataatatttt

upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: PP1S63_208V6.1 (Physcomitrella patens), 5'ss of exon 7
ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg--ctaaatgatcttaaaatttaaggcatagtcttttcat-----atcattcaaa---ggttctgccactttgccaaaacagcatgtatttcaa-----gtactag-----------------------------
|||||||| ||||| |||||||||||||| ||||||||| ||||||||||||| ||||||||||||||          || | | |   | |   || |  ||    ||  ||||     ||  |||  |   | |||| |  || ||       ||    | ||| ||     || |||                              
ATCTTTCGGAAGGAGCCATTCTTTTATGGACATGACAATTATGATCAGCTTGTGAAGATTGCCAAGgtgctcggaaatctcatttactatcagccttcaatcagtcactgctcattcgtaatttttctgaatcgtttctcctcctgtgtttctcaaggccatgtttaaatcttcgttctaaatctaatctttgttgttacctgaaatcag

upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: PP1S230_93V6.1 (Physcomitrella patens), 5'ss of exon 6
ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttg--gctaaatgatcttaaaatttaaggcatagtcttttcatatcattcaaaggttctgccacttt-gccaaaacagcatgtatttcaagtactag
|| || |||||||| || || || ||||||||||||||| ||||||||||||||||||| || |||||| |||    | | | | |    |  |  |  |    |||||| | || |   |   | ||| ||  ||| | ||   |      || || |   |      
ATTTTCCGCAAGGAGCCGTTTTTCTATGGTCATGACAATTATGATCAGCTTGTCAAGATCGCTAAGgtaagttcaatgtttagtaaaacgatcacctttgttgcagtcttgttatct---ttgtatgttttgaaactgtagctctagtgcggtgcatattttgcttcga

upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: PP1S165_119V6.1 (Physcomitrella patens), 5'ss of exon 7
ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttg----------gctaaatgatcttaaaa----tttaaggcatagtcttttcatatcat-tcaaaggttctgccact-----ttgccaaaacagcatgtatttcaagtactag----------------------
|| ||||| ||||| |||||||||||||| ||||||||| ||||||| ||||| |||||||| |||||    | |              | |   ||| ||     | ||   ||   | | || || |  | | ||| ||  |   |||     | || |   ||   ||| |||  ||   ||                       
ATATTTCGGAAGGAGCCATTCTTTTATGGGCATGACAATTATGATCAACTTGTGAAGATTGCTAAGgtgcagtggcagttcatacatagatttgccttcaagcagttatatatcactttttatttattttgtataaaaagtcatattactgtctttcgcaacgccaagttgtgttttgagccttatctttgtgggtgtctgataccag

upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: EFJ20478 (Selaginella moellendorffii), 5'ss of exon 6
ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttggctaaatga-----tcttaaaatttaaggcatagtcttttcatatcattcaaaggttctgccactttgccaaaacagcatgtatttcaagtactag
|| |||||||| ||||||||||||||||| ||||||||||| |||||||| || |||||||||||||| |     ||  ||||      ||||    |||  | | | | ||| |  | |                                                   
ATATTTCGCAAAGAACCATTCTTTTATGGCCATGACAATCACGATCAGCTGGTGAAGATTGCCAAGgttttaaacgcagaatgtctgtttcttgctgtttttgacgttggcttgtggtgtttag-----------------------------------------------

upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: EFJ28543 (Selaginella moellendorffii), 5'ss of exon 6
ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttggctaaatgatcttaaaatttaaggcatagtcttttcatatcattcaaaggttctgccactttgccaaaacagcatgtatttcaagtactag
|| |||||||| ||||||||||||||||| ||||||||||| |||||||| || |||||||||||||| | |    | | |   |||     |||   || |  | ||  | |    ||     |||  |                                    
ATATTTCGCAAAGAACCATTCTTTTATGGCCATGACAATCACGATCAGCTGGTGAAGATTGCCAAGgt-tttaaacccagaatgtct----gtttgttgc-tgtttttgacgttggcttgtggtgtttag------------------------------------

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|30305031|gb|CB981825.1|CB981825
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|110729560|gb|EE105636.1|EE105636
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|37187892|gb|CF607243.1|CF607243
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|352778214|gb|FQ465524.1|FQ465524
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAAAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|352773413|gb|FQ472195.1|FQ472195
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|352773833|gb|FQ472965.1|FQ472965
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|352768610|gb|FQ467822.1|FQ467822
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAAACAA-TATCGTTTAGA
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAA-CAAATATCGTTTAGA
EST: gi|110364239|gb|EC923655.1|EC923655
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|110365854|gb|EC929354.1|EC929354
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|351030908|gb|FQ438944.1|FQ438944
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|110417189|gb|EC983224.1|EC983224
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|30304903|gb|CB981697.1|CB981697
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|110423934|gb|EC990287.1|EC990287
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|110731135|gb|EE109011.1|EE109011
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|33406820|gb|CF212447.1|CF212447
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTT
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTT
EST: gi|110374218|gb|EC938850.1|EC938850
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|110692539|gb|EE071897.1|EE071897
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|352772933|gb|FQ470548.1|FQ470548
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|110361331|gb|EC924797.1|EC924797
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|352768977|gb|FQ468168.1|FQ468168
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|110384058|gb|EC948472.1|EC948472
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
EST: gi|254915687|gb|GR905118.1|GR905118
EST:     CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAG                         GTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG
genomic: CATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttgg ... gtattttcagGTACTTGGTACAGATGAGTTAAATGCATATCTGAACAAATATCGTTTAGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttggctaaatgatcttaaaatttaaggcatagtcttttcatatcattcaaaggttctgccactttgccaaaacagcatgtatttcaagtactag

- - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaacag