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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGAGGGAAATTTGAAGCTTGCAGATTTTGGCCTTGCCCGGTCATTTTCAAATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAGgtaagcagttaaactcccatgggtagagaactcagatttcagtagcagcctctttctattccttaaggagcattaactgtttaaccaatcccaatttgaacag

Basic information

species Vitis vinifera
transcript Vv06s0009g01800.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0009g01800.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os05g32360.1 (Oryza sativa), 5'ss of exon 7
ATGAGGGAAATTTGAAGCTTGCAGATTTTGGCCTTGCCCGGTCATTTTCAAATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAGgtaa-gcag--ttaaactcccatgggtagagaactcagatttcagtagcagcctctttctattccttaaggagcattaactgtttaaccaatcccaatttgaacag
|||| || || |||||||| || ||||||||||| ||  | ||||||||||||||||| || || ||||| || |||||||| || || || |||||||||||  ||||  |||    |       |  |     || |||    ||   |  | |   | || |||         | ||  |||  |||||   | ||| |    
ATGAAGGTAACTTGAAGCTGGCTGATTTTGGCCTAGCAAGATCATTTTCAAATGATCATAACGGAAATCTCACTAATCGTGTGATCACTTTGTGGTACAGgtattgcagaattatgaacttgccattgaattttgcatattgtgtta-tggtatttagtttttgcttggatcatgctgaccatttg-ccaatg--attttcag---

upper sequence: Vv06s0009g01800.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os01g72790.1 (Oryza sativa), 5'ss of exon 7
ATGAGGGAAATTTGAAGCTTGCAGATTTTGGCCTTGCCCGGTCATTTTCAAATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAGgtaagcagttaaactcccatgggtaga-----gaactcagatttcagtagcagcctctttctattccttaaggagcattaactgtttaaccaatcccaatttgaacag
||||||| || ||||||||||| ||||||||||||||  | ||||| |||| ||| |||||||| ||  | ||||| ||||| || || || ||||| ||||| | |   ||  ||||||| | ||        | ||| |||||  |  |    |||||  |||  |         |||  ||| ||  ||                
ATGAGGGTAACTTGAAGCTTGCTGATTTTGGCCTTGCAAGATCATTCTCAAGTGACCACAATGGAAACTTAACAAACCGTGTGATCACTTTGTGGTATAGgtatgga---aacttcccatgaggaggttcttccattcatatttctcttac--tttcttttcattgttctctctctcttatttgtgtatgcag---------------

upper sequence: Vv06s0009g01800.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G019267_T01 (Zea mays), 5'ss of exon 7
ATGAGGGAAATTTGAAGCTTGCAGATTTTGGCCTTGCCCGGTCATTTTCAAATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAGgtaagcagttaaactcccatgggtagagaactcagatttcagtagcagcctctttctattccttaaggagcatta-actgtttaaccaatcccaatttgaacag------
||||||| || ||||||||||| ||||||||||||||  | ||||| || | |||||||||||| || ||||| || ||||| || || || ||||| |||||    ||  |  |  ||  |||   |    || ||||      |||| | |||  |    | ||  |   ||| | | | ||  |||| |||   |  | ||      
ATGAGGGTAACTTGAAGCTTGCTGATTTTGGCCTTGCAAGATCATTCTCGAGTGATCACAATGGCAACCTTACTAACCGTGTGATCACTTTGTGGTATAGgta--ttgtcta-ttttcacaggttttgttaccatattt-----acagcatgtttggaag--taaaatatttttatagtttctaggcaataccatggtttataggaatac

upper sequence: Vv06s0009g01800.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA02G44400.1 (Glycine max), 5'ss of exon 8
ATGAGGGAAATTTGAAGCTTGCAGATTTTGGCCTTGCCCGGTCATTTTCAAATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAGgtaagcagttaaactcccatgggtagagaactcagatttcagtagcagcctctttctattccttaaggagcattaactgtttaaccaatcccaatttgaacag
|||| |||||| | ||||||||||||||||| || || || |||||||| ||||| || ||||  ||||||||||||||||| ||||| |||||||||||||||   ||   | |        |   || ||  ||  |  |     || | | |  ||| ||| |     ||| |                           
ATGAAGGAAATCTTAAGCTTGCAGATTTTGGACTGGCACGATCATTTTCTAATGACCAAAATGCAAATCTTACAAATCGTGTCATTACGTTATGGTACAGgtaattggtgtcatttttt---atcatgatctatgagattggccaatgcatgtattgatttctttatatatatttag--------------------------

upper sequence: Vv06s0009g01800.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA14G04410.1 (Glycine max), 5'ss of exon 7
ATGAGGGAAATTTGAAGCTTGCAGATTTTGGCCTTGCCCGGTCATTTTCAAATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAGgtaagcagttaaactcccatgggtagagaactcagatttcagtagcagcctctttctattccttaaggagcattaactgtttaaccaatcccaatttgaacag
|||| |||||| | ||||||||||||||||| || || || |||||||| ||||| || ||||  |||||||| |||||||| ||||| |||||||||||||||   ||   | |    |     |||   ||| |||   |     || | | |  |||  |   |    ||  |                           
ATGAAGGAAATCTTAAGCTTGCAGATTTTGGACTGGCACGATCATTTTCTAATGACCAAAATGCAAATCTTACTAATCGTGTCATTACGTTATGGTACAGgtaattggtgtcatttttttatcatgagttatcaaatt--ggccaatgcatgtattgattttt--ggctatatctag--------------------------

upper sequence: Vv06s0009g01800.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA20G10960.1 (Glycine max), 5'ss of exon 6
ATGAGGGAAATTTGAAGCTTGCAGATTTTGGCCTTGCCCGGTCATTTTCAAATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAGgtaagcagttaaactcccatgggtagaga-----actcagatttcagtagcagcctctttctattccttaaggagcattaac-tgtttaaccaatccca--atttgaacag
|||| || ||| |||||||||| |||||||| || || ||||||||||| || || |||||||  ||||||||||||||||| || || |||||||||||||||    |    |    || |||    |     ||  |  ||    | | ||  |      ||    | | |  |||  || |  || |   ||  ||  || | |  ||
ATGAAGGTAATCTGAAGCTTGCTGATTTTGGACTGGCACGGTCATTTTCTAACGAGCACAATGCAAATCTTACAAATCGTGTCATCACATTATGGTACAGgtaatttat--gtccataataggttttaattttgacctaagttcttttgggagggttgcatcatgaacttatgcccatacacattattgatttatttcattatattattag

upper sequence: Vv06s0009g01800.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: PP1S121_162V6.1 (Physcomitrella patens), 5'ss of exon 6
ATGAGGGAAATTTGAAGCTTGCAGATTTTGGCCTTGCCCGGTCATTTTCAAATGATCACAATGGGAATC---TTACAAATCGTGTTATTACCTTATGGTACAGgtaagcagttaaactcccatgggtagagaactcagatttcagtagcagcctctttctattccttaaggagcattaactgtttaaccaatcccaatttgaacag--------------------------------------------------------------
   | |||| |||||||||||| |||||||| |||||  |||| ||||| |||||||| |||||  | |   | |||||  | ||||| ||  | ||||| |||||||   | |   | | |    | |    | | | | ||| ||    | |  |||   |      ||||       | ||| ||  | |  || | || ||                                                               
---ATGGAATTTTGAAGCTTGCTGATTTTGGGCTTGCAAGGTCGTTTTCTAATGATCAGAATGGTCAACCACTGACAAACAGAGTTATCACTCTTTGGTATAGgtaaggcatcagtgttctacttttgg----ccctgctatcattat---cttggttcggataggaggggagttagttttctttgactgagcataagt-gagcattgctccatagtggacgactactagtaagtcacttgactttctagtatttcttcctgtttcag

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|110724472|gb|EE100331.1|EE100331
EST:     AATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAG                         ACCGCCAGAGTTGCTGCTTGGGACCACAAAGTATGGTCCAGCTGT-GATAT
genomic: AATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAGgtaagcagtt ... atttgaacagACCGCCAGAGTTGCTGCTTGGGACCACAAGGTATGGTCCAGCTGTTGATAT
EST: gi|110707937|gb|EE084906.1|EE084906
EST:     AATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAG                         ACCGCCAGAGTTGCTGCTTGGGACCACAAGGTATGGTCCAGCTGTTGATAT
genomic: AATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAGgtaagcagtt ... atttgaacagACCGCCAGAGTTGCTGCTTGGGACCACAAGGTATGGTCCAGCTGTTGATAT
EST: gi|161712182|gb|FC061554.1|FC061554
EST:     AATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAG                         ACCGCCAGAGTTGCTGCTTGGGACCACAAGGTATGGTCCAGCTGTTGATAT
genomic: AATGATCACAATGGGAATCTTACAAATCGTGTTATTACCTTATGGTACAGgtaagcagtt ... atttgaacagACCGCCAGAGTTGCTGCTTGGGACCACAAGGTATGGTCCAGCTGTTGATAT