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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCATTACACTGGGACTTTGCTTGATGGAACTCAGTTCGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatagggttttgttgacgaaatttgatagaaaattttaattgattaattattgattgtttggtttttcaactttgtggtttcgattattttgttg...

Basic information

species Vitis vinifera
transcript Vv00s0769g00010.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA03G21690.1 (Glycine max), 5'ss of exon 2
TTCATTACACTGGGACTTTGCTTGATGGAACTCAGTTCGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatagggttttgttgacgaaatttgatagaaaattttaattgattaattattgattgtttggtttttcaactttgtg-gtttcgattattttgttg-----
|||| || |||||||| ||||||||||| ||| |||| ||||||||| | |||||||| ||||| ||||  ||||| ||||| ||||||  |        ||| ||      | ||  | || |||| |   || |   | ||||| ||||     ||  ||   |||| || |    ||  || |       
TTCACTATACTGGGACGTTGCTTGATGGCACTAAGTTTGATTCCAGCAGAGATAGGGGAACTCCTTTCAGTTTCACGCTTGGACAAGgtgagtgc----cttttttatttttacttttttgagaattgtgggtgtt--gtgattgactgttgttacttggaatagtgtgagtgtttggtaggttatgaagtgg

upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA08G46090.2 (Glycine max), 5'ss of exon 2
TTCATTACACTGGGACTTTGCTTGATGGAACTCAGTTCGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgc-atagggttttgttgacgaaatttgatagaaaattttaattgattaattattgattgtttggtttttcaactttgtgg--tttcgattattttgttg
|||||||||| ||||||||||| || |||||| |||| ||||| ||||| || ||||   |||| ||||  ||||| || || |||||| ||| ||      ||  |       |   |  |||||    |    |    |  | |||  | ||  |     | || |  |  || |  | | ||     
TTCATTACACGGGGACTTTGCTCGACGGAACTAAGTTTGATTCGAGCCGCGACAGGGATTCTCCCTTCAGCTTCACGCTCGGACAAGgtttgccatctctcctttctcgtttgttcgaactgaaaagaaaagaaaagacctcgtggatgatgtgtctgaaataattggaagcattaccgtgagttaa---

upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT5G48570.1 (Arabidopsis thaliana), 5'ss of exon 2
TTCATTACACTGGGACTTTGCTTGATGGAACTCAGTTCGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatagggttttgttgacgaaatttgatagaaaattttaattg-attaattattgattgtttggtttttcaactttgtggtttcgattattttgttg--
| ||||||||||| |||||| | ||||| ||  |||| ||||| |||||||| || || ||||| ||||| || || |||||||||||||    |    |||||   || | |||||  ||     | || | | |||       |||| ||| |  ||   |   | |  |   ||| || ||   |  
TGCATTACACTGGAACTTTGTTAGATGGTACCAAGTTTGATTCGAGCCGTGACAGAGGAACTCCTTTCAAATTTACTCTTGGCCAAGgtacttttcta-ttttgc-aacaatatttgtgaggcctatgtattcggatttggatcggattttttcggattcggataatattatag-gatcatattaaggct

upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT3G25230.1 (Arabidopsis thaliana), 5'ss of exon 2
TTCATTACACTGGGACTTTGCTTGATGGAACTCAGTTCGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatagggttttgttgacgaaatttgatagaaaattttaattgattaattattgattgtttggtttttcaactttgtggtttcgattattttgttg-------------------------------------------------------------------------------------
| ||||||||||| |||||||||||||| ||  |||| ||||| || |||||||| |  || || ||||| ||||| ||||| |||||| ||   |   |  | |     | |  | ||||      |  | | | ||||  | ||   || |||     || ||  | | |  ||   ||   |||                                                                                     
TGCATTACACTGGAACTTTGCTTGATGGGACGAAGTTTGATTCGAGTCGTGATAGAGCAACGCCTTTCAAATTCACTCTTGGACAAGgtttgtg-attctcatctcctaaagacctaatagtttccgtatagttagtaatc-tggagaattcggtagactaatttgatagatatgaac-ttgaattgagatatagttgttgttaagttcaaaatcgaatttttgttgatgaatgtgtaatggtttgtggttgttggcattgtgtttttgcag

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|110689824|gb|EE066384.1|EE066384
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|71873918|gb|DT022973.1|DT022973
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|161717751|gb|FC068159.1|FC068159
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|34546871|gb|CF515103.1|CF515103
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|30132799|gb|CB918138.1|CB918138
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|34319038|gb|CF371792.1|CF371792
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|37187620|gb|CF606973.1|CF606973
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|30132743|gb|CB918082.1|CB918082
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|71861038|gb|DT010093.1|DT010093
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAAACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|110699844|gb|EE077215.1|EE077215
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|110365463|gb|EC928491.1|EC928491
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|34546797|gb|CF515029.1|CF515029
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|71858420|gb|DT007475.1|DT007475
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|352777415|gb|FQ474049.1|FQ474049
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAAACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|34548843|gb|CF517075.1|CF517075
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|110700523|gb|EE078663.1|EE078663
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|352782187|gb|FQ470089.1|FQ470089
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAAACCATGAAGAACGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|352772292|gb|FQ469817.1|FQ469817
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAAACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|161720136|gb|FC065476.1|FC065476
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|71857966|gb|DT007021.1|DT007021
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|110690423|gb|EE067508.1|EE067508
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|34550935|gb|CF519143.1|CF519143
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|161718283|gb|FC066965.1|FC066965
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|71861258|gb|DT010313.1|DT010313
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAAACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|71857125|gb|DT006180.1|DT006180
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|110699434|gb|EE076427.1|EE076427
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|352769557|gb|FQ468485.1|FQ468485
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAAACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|37184242|gb|CF603596.1|CF603596
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|34546618|gb|CF514850.1|CF514850
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
EST: gi|34550055|gb|CF518287.1|CF518287
EST:     CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAG                         GGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG
genomic: CGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatag ... gtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCATTACACTGGGACTTTGCTTGATGGAACTCAGTTCGATTCCAGCCGTGATAGGGGGACTCCGTTCAAGTTCACCCTTGGCCAAGgtatgcatagggttttgttgacgaaatttgatagaaaattttaattgattaattattgattgtttggtttttcaactttgtggtttcgattattttgttg

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