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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGCCCTAGCATGTATGCAAGTCAGTGGTTCATAACTGTTTTCTCATACTCTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggtctaaaagctcattaaattctccaataggcaccattattttgttttaggaacatttttattccttgggcag

Basic information

species Vitis vinifera
transcript Vv14s0083g00540.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os08g31840.1 (Oryza sativa), 5'ss of exon 6
AAGCCCTAGCATGTATGCAAGTCAGTGGTTCATAACTGTTTTCTCATACTCTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggtctaaaagctcattaaattctccaataggcaccattattttgttttaggaac----att--tttattccttgggcag-----------------
||  || ||||||||||||||||| ||||| || ||||||||||| || || ||||| || ||| |  ||||| || ||||||||||||| || |||||||| ||     |    || |||  |||| | |  |   |    |||| |    ||| || |    |||   | |||     ||||                  
AAATCCAAGCATGTATGCAAGTCAATGGTTTATCACTGTTTTCTCGTATTCCTTCCCTTTTCATCTAACTCTTAGAGTTTGGGATGTCTTCCTGTATGAGgtcagaatcttgcccgc-catataattgttctgtttacttt-ttatctgaggttatgagctaagattgactgattttcaaggcacaatttattctaatacat

upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os08g31840.4 (Oryza sativa), 5'ss of exon 6
----------------------------------------------------------------------------------------AAGCCCTAGCATGTATGCAAGTCAGTGGTTCATAACTGTTTTCTCATACTCTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggtctaaaagctcattaaattctccaataggcaccattattttgttttaggaacatttttattccttgggcag
                                                                                        ||  || ||||||||||||||||| ||||| || ||||||||||| || || ||||| || ||| |  ||||| || ||||||||||||| || |||||||| ||     |                                                                    
CGCTTGTGCAGCAATATCTGTATCAGTTTGAGAAATTAGTTCTGGAGCAAATGCCACAGTTGGGACAGCATTTTATTGAAGAAATGATAAATCCAAGCATgtatgcaagtcaatggtttatcactgttttctcgtattccttcccttttcatctaactcttagagtttgggatgtcttcctgtatgaggtcagaatcttg-------------------------------------------------------------------

upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 6
AAGCCCTAGCATGTATGCAAGTCAGTGGTTCATAACTGTTTTCTCATACTCTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggtctaaaagctcat---taaattct----ccaataggcacc----attattt---tgttttaggaacatttttattccttgggcag-------
|| ||| ||||||||||||||||| ||||| || || ||||||||||| || |||||||| ||| |  ||||| || |||||||||| |||||||||||||||||     ||      |||   |  ||| |      |    |||||     ||||||   | || |     || | ||  | | |     |       
AAACCCAAGCATGTATGCAAGTCAATGGTTTATCACAGTTTTCTCATATTCCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatcttatcctgccatatgtgcattttgtgtttagattgcaccttgggttatttgacttttctttatgcactattgcttcataaatggtatagtc

upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA13G07090.1 (Glycine max), 5'ss of exon 5
AAGCCCTAGCATGTATGCAAGTCAGTGGTTCATAACTGTTTTCTCATACTCTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggt-ctaaaagctcattaaattctccaataggcaccattat---tttgttttaggaacatttttattccttgggcag
||  |||||||||||||| || |||||||||||||||||||| || ||||| || ||||| |||||||||||||||||||||||||||||||| |||||||||||   | ||      |     ||   |  | | |  |  | |||     | |  |    || || |||| | |   |   
AAATCCTAGCATGTATGCTAGCCAGTGGTTCATAACTGTTTTTTCGTACTCCTTTCCATTTCATTTGGCTCTTCGAATTTGGGATGTCTTTCTCTATGAGgttagctatgctttccatttgaagaaccatttattggttagaaatatggacctataatgatgactttcttatccttccag---

upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA19G05360.1 (Glycine max), 5'ss of exon 6
AAGCCCTAGCATGTATGCAAGTCAGTGGTTCATAACTGTTTTCTCATACTCTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggtctaaaagctcattaaa----ttctccaataggcaccattattttgttttaggaacatttttattccttgggcag
||  |||||||||||||| || ||||||||||||||||| || ||||| || || ||||| ||||||||||||||||||||||||||||| || || ||||||||| ||       |||   | |    ||      |  |    ||   | | |  |    || || ||||   |   |   
AAATCCTAGCATGTATGCTAGCCAGTGGTTCATAACTGTATTTTCATATTCCTTTCCATTTCATTTGGCTCTTCGAATTTGGGATGTCTTCCTCTACGAGgttagttgtgctttccctctgaagaaccatttattggttagagatatggatctataatgatgactttcttatcattccag---

upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 6
AAGCCCTAGCATGTATGCAAGTCAGTGGTTCATAACTGTTTTCTCATACTCTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtgg---------tctaaaagctcattaaattctccaataggcaccatt--attttgtt--ttaggaacatttttattccttgggcag
 |  || || |||||||||||||| |||||||| || || ||||||||||| || || |||| ||||||||| || || |||||||| ||||| |  ||||| | |             ||||| ||| ||||  | |    |   ||   ||  ||| ||||   |   |   |  || || |||  |   
TAATCCGAGTATGTATGCAAGTCAATGGTTCATCACCGTCTTCTCATACTCATTTCCTTTCCCTTTGGCTCTACGGATATGGGATGTGTTTCTCTCCGAGgtaactaaatgcgcatccttaaaatctctttaacgtttgttgtgatcaaagtttcattctgttatcttctatggtcattgtttcttaag---

upper sequence: Vv14s0083g00540.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT3G02460.2 (Arabidopsis thaliana), 5'ss of exon 6
AAGCCCTAGCATGTATGCAAGTCAGTGGTTCATAACTGTTTTCTCATACTCTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtgg---------tctaaaagctcattaaattctccaataggcaccatt--attttgtt--ttaggaacatttttattccttgggcag--------
 |  || || |||||||||||||| |||||||| || || ||||||||||| || || |||| ||||||||| || || |||||||| ||||| |  ||||| | |             ||||| ||| ||||  | |    |   ||   ||  ||| ||||   |   |   |  || || |||  |           
TAATCCGAGTATGTATGCAAGTCAATGGTTCATCACCGTCTTCTCATACTCATTTCCTTTCCCTTTGGCTCTACGGATATGGGATGTGTTTCTCTCCGAGgtaactaaatgcgcatccttaaaatctctttaacgtttgttgtgatcaaagtttcattctgttatcttctatggtcattgtttcttaagggtgttaaaat

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|349829177|gb|FQ419687.1|FQ419687
EST:     CTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAG                         GGTGTTAAAATCGTTTTCCAAGTTGGTCTGGCCCTACTGAAAATATTGCCA
genomic: CTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggtc ... ccttgggcagGGTGTTAAAATCGTTTTCCAAGTTGGTCTGGCCCTACTGAAA-TATTGCCA
EST: gi|351012823|gb|FQ430386.1|FQ430386
EST:     CTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAG                         GGTGTTAAAATCGTTTTCCAAGTTGGTCTGGCCCTACTGAAATATTGCCAT
genomic: CTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggtc ... ccttgggcagGGTGTTAAAATCGTTTTCCAAGTTGGTCTGGCCCTACTGAAATATTGCCAT
EST: gi|349827061|gb|FQ421334.1|FQ421334
EST:     CTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAG                         GGTGTTAAAATCGTTTTCCAAGTTGGTCTGGCCCTACTGAAATATTGCCAT
genomic: CTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggtc ... ccttgggcagGGTGTTAAAATCGTTTTCCAAGTTGGTCTGGCCCTACTGAAATATTGCCAT
EST: gi|349829128|gb|FQ419660.1|FQ419660
EST:     CTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAG                         GGTGTTAAAATCGTTTTCCAAGTTGGTCTGGCCCTACTGAAATATTGCCAT
genomic: CTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggtc ... ccttgggcagGGTGTTAAAATCGTTTTCCAAGTTGGTCTGGCCCTACTGAAATATTGCCAT
EST: gi|351038918|gb|FQ457593.1|FQ457593
EST:     CTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAG                         GGTGTTAAAATCGTTTTCCAAGTTGGTCTGGCCCTACTGAAATATTGCCAT
genomic: CTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggtc ... ccttgggcagGGTGTTAAAATCGTTTTCCAAGTTGGTCTGGCCCTACTGAAATATTGCCAT
EST: gi|110417184|gb|EC983219.1|EC983219
EST:     CTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAG                         GGTGTTAAAATCGTTTTCCAAGTTGGTCTGGCCCTACTGAAATATTGCCAT
genomic: CTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtggtc ... ccttgggcagGGTGTTAAAATCGTTTTCCAAGTTGGTCTGGCCCTACTGAAATATTGCCAT