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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgttttaatgagttgagaaattgcaatgtaaggttgacaatatttgttggttttgcacttttggattattgattgatgtttcatggttgctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA

Basic information

species Vitis vinifera
transcript Vv03s0091g00740.t01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os10g20630.1 (Oryza sativa), 3'ss of exon 11
aatgttttaatgagttgagaaattgcaatgtaaggttgacaatatttgttggttttgcacttttggattattgat--tgatgtttcatggttgctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA-
||| | | || | | | || | | || | | || | ||| || | | || | || || | | |||||||||||||||||||| ||||||||||| || |||||||| |||||||| |||||||| ||| ||| || ||||||||| ||| || | || |
-atgatcagacctttttc-atttcgagatcagaaatgtccaccacatctttatccatagcttatgacctgctaatattaatcccgtgtgctgtttctttcagTCATACATGGACTCTGAGATCAGAGCAATCATGGCACAGTACATGCCACTGGACAGTCAAGGGGAGGTGCCAAATCATACAAATGATGAAGA-ACACCATT

upper sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA01G45380.1 (Glycine max), 3'ss of exon 11
aatgttttaatgagttgagaaattgcaatgtaaggttgacaatatttgttggttttgcacttttggattattgattgatg----tttcatggttgctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA
| | ||| | ||| || ||| || | || | | | |||| | ||| ||| ||| | | || |||| ||| ||||||||| || || |||||||| || ||||| ||||| |||||| ||||||||||| | ||||| |||||||||||| ||| | |||||||
---aaatcagaacacaagtgaatagtgatgattcatttgtaat-ttaacttattcagttttataggataaaaaattaatggtatttttgttggtggttttgcagCAATACATGGATTCAGAAATCAGAGCAATCATGGCGCAATATATGCCCTTGGACAGCCAAGCAGAAGTTCCAAATCATGTCAATGATCAAAGAGCATGAA

upper sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 11
---------------------------------------------------------------aatgttttaatgagttgagaaattgcaatgtaaggttgacaatatttgttggttttgcacttttggattattgattgatg----tttcatggttgctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA
| || | | | |||| | ||| || ||| | || || | | | |||| | || || ||| || | || |||| ||| ||||||||| || || || ||||| || ||||| ||||| |||||| ||||||||||| | ||||| |||||||||||| ||| | |||||||
gtaagctcttctgctttctctcattttggtggtgttattggatgcttaatgctgaaattctgtagcattagagcgtgctgagttgccgtcatgattcatttgtaatttaaatttattcagttttataggataaaaatttagtggtatttttattggtggttttgcagCAATACATGGATTCCGAAATTAGAGCAATCATGGCGCAATATATGCCCTTGGACAGCCAAGCAGAAGTTCCAAATCATGTCAATGATCAAAGAGCATGAA

upper sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G40340.1 (Glycine max), 3'ss of exon 11
-----------------------------------------------------------------------------------------aatgttttaatgagttgagaaattgca--atgtaaggttgacaatatttgttggttttgcacttttggatt----attgattgatgtttc-atggttgctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA
||| | | | | | | | | | || | || | | | | | | | || ||| | | | ||| | | || |||| |||||||| ||||| || || |||||||| || |||||||| || |||||| ||||||||||| ||| | |||||| || || || || | ||
gtaagctttatcacattctcagtttggtgatgctatttgatatttagatgccttattttattcaattctaaaattatatagcattgtggcatgcaatgaaatgattaaatttcgtatcatctgagacttgttagaaactcaaatatgagaacatgacgtttgccatttaccggtatttttgttggtgtttttgcagTCATATATGGATTCTGAAATCAGAGCCATCATGGCACAGTATATGCCCTTGGACAGCCAAGGAGAAATTGTAAATCACGTGAGCGAAGAAAGAGCGTAAA

upper sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA20G27000.1 (Glycine max), 3'ss of exon 11
------------------------------------------------------------------------------------------aatgttttaatgagttgagaaattg---caatgtaaggttgacaatatttgttggttttgcacttttggatt----attgattgatgtttc-atggttgctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA
||| | || || | | || | || | | | | | | | ||| ||| | | | ||| | | || |||| |||||||| ||||| || || |||||||| || |||||||| || |||||| ||||||||||| ||||| |||||| || || || || ||||
gtaagctttgtcacattttcagtttggtgatgctattagatatttagatgcctttttttattcaattctaaattttatatagcattgtggcatgcaacgagaagcattaaattcggtatcatctgagacttgttagaaactcaaatatgagaacatgaaatttgcaatttaccggtatttttgttggtgtttttgcagTCATATATGGATTCTGAAATCAGAGCCATCATGGCACAGTATATGCCCTTGGACAGCCAAGGAGAAGTTGTAAATCACGTGCACGAAGAAAGAGCGTGAA

upper sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT2G14720.1 (Arabidopsis thaliana), 3'ss of exon 11
--------------------------------------------------------aatgttttaatgagttgagaaattgc--aatgtaaggtt--------gacaatatt-tgttggttttgcact------tttggattattg--attgatgtttcatggt--tgctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA
||||||| | ||||| | | || | ||| | |||| | |||| ||| | || ||| |||| || | | ||| | || ||| ||| |||||||||||| ||||||||||| ||||||||||| |||||||| |||||||||||| | || ||||| || || ||| || | ||| | |
gtaagctttttattcatccttctgctatttctgttagaagcaaaagattaatgttttatgttttggttgcctgagatgtctcttaaaacattgttttatgtaacccgatatcgtcttggaattgtatcgattacttgggaaaattgttatgaacttgctatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGAACGTGCCTAAG

upper sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT2G14740.1 (Arabidopsis thaliana), 3'ss of exon 11
-------------------aatgttttaatgagttgagaaattgcaatg--taaggttgaca--atatttgttggttttgc-acttttggattattgatt-gatgtttc-atggt--tgctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA
|| | | || || | | ||| ||| || | |||||| | | |||| ||| |||| || | || | ||| || |||| ||| |||||||||||| ||||||||||| ||||||||||| |||||||| ||||||||||| | || |||| || || || ||| || | || |||
gtaagcttttttaatctcttctgctcttttgttttctgttgtgttaatagcgaagattaatcttgtatttgccatatccgttacttggggaaaattgttttaacattcctatgcccctggttttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCATTGGACAGCCAACCCGAGATCCCGAACCACGTGAATGATGAACGCGCCTGAG

upper sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S227_69V6.1 (Physcomitrella patens), 3'ss of exon 13
aatgttttaatgagttgagaaattgcaatgtaaggttgacaata-tttgttggtt--ttgcactt-ttggattattgattgatgtttcatggttgcttttt--cagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA-
|| ||| | | |||| | || | || | || || || | ||| |||| || ||||| | | | | | | |||| | ||||||||||||||||||||||| || || |||||||| || |||||||| || |||||| || ||||| | ||| | | ||||| | | |
-----ttgcatgtctccacaaatggagatctctcttttgtactagttcgtaaagtgcttgaacttatttgattaacggatt-tagcttgtcggtgctgtggaacagTCATACATGGACTCGGAGATAAGGGCAATAATGGCGCAGTACATGCCACTCGACAGCTCAAGTGAAGTTAATCACCATCTGACCGAGGAA-GCGTAAAGAC

upper sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ31111 (Selaginella moellendorffii), 3'ss of exon 10
aatgttttaatgagttgagaaattgcaatgtaaggttgacaatatttgttggttttgcacttttggattattgattgatgtttcatggttgcttttt--cagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA
|| || | | ||| || | || | || | ||||| | | ||| |||| || ||||| || ||||| |||||||| ||||| || ||||| || |||||||| ||||||||||| | ||||||| || || ||||| |||
----------------------------------gtacgtgatctct-ctggcatt---cattccggttggt-attga-gctgtgtggctgctggttggcagTCTTATATGGATTCGGAGATTAGAGCGATCATGGCGCAGTACATGCCTCTGGACAGCCAGAACGAAGTCCACCGCCACCTCGAGGAGGAAGCGTAGTGAT

upper sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ06539 (Selaginella moellendorffii), 3'ss of exon 10
aatgttttaatgagttgagaaattgcaatgtaaggttgacaatatttgttggttttgcacttttggattattgattgatgtttcatggttgcttttt--cagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA
|| || | | ||| || | || | || | ||||| | | ||| |||| || ||||| || ||||| |||||||| ||||| || ||||| || |||||||| ||||||||||| | ||||||| ||| || ||||| |||
----------------------------------gtacgtgatctct-ctggcatt---cattccggttggt-attga-gctgtgtggctgctggttggcagTCTTATATGGATTCGGAGATTAGAGCGATCATGGCGCAGTACATGCCTCTGGACAGCCAGAACGAAGTCCACCGCCATCTCGAGGAGGAAGCGTAGTGAT

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|45770726|gb|CN006578.1|CN006578
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|71888433|gb|DT037488.1|DT037488
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|110420156|gb|EC986419.1|EC986419
EST:     TGGCTATGGCTGGTACTGGAGGATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|110363399|gb|EC926982.1|EC926982
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|110359067|gb|EC919937.1|EC919937
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|110383781|gb|EC948181.1|EC948181
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|110384097|gb|EC948513.1|EC948513
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|110718216|gb|EE094793.1|EE094793
EST:     TGGCTATGGCTGGTACTGGAGGATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|349830520|gb|FQ416830.1|FQ416830
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|26262131|gb|CA813194.1|CA813194
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGGTATAATGGCAGAATACATGGCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|30296650|gb|CB973444.1|CB973444
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|110692278|gb|EE071340.1|EE071340
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|34362390|gb|CF403975.1|CF403975
EST:     CTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCGCAATACATGCCCCTG
genomic: CTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|110384398|gb|EC948830.1|EC948830
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|26263194|gb|CA814257.1|CA814257
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|30131171|gb|CB916510.1|CB916510
EST:     CTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: CTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|110403004|gb|EC964013.1|EC964013
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|30300932|gb|CB977726.1|CB977726
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
EST: gi|30296719|gb|CB973513.1|CB973513
EST:     TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGG                         TCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG
genomic: TGGCTATGGCTGGTACTGGAGCATATCTTGTGTACAAATATAGAATAAGGgtaagcttgg ... gctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttggttttgcacttttggattattgattgatgtttcatggttgctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA
                                           ttgctttttc  CT-rich tract
 attattgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatgttttaatgagttgagaaattgcaatgtaaggttgacaatatttgttggttttgcacttttggattattgattgatgtttcatggttgctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - -agaaatt
- - - - - - - - - - - - -caatgta
- - - - - - - - - - - - - - - - - - - - - - - tgttggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcatgg