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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGAGGGACTGCCACCACACCCGGTACCCAGAACTGTTGAAGAGGTCTTCAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgctctcttctctgtgtatatatatgcatatggttttctgttgtttttttgtgttttttccttgttttgttcgtattttgatgattttgttgaatgggtgtttgtgggtattgcag

Basic information

species Vitis vinifera
transcript Vv12s0035g01980.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0035g01980.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os05g34640.1 (Oryza sativa), 5'ss of exon 1
-ATGGAGGGACTGCCACCACACCCGGTACCCAGAACTGTTGAAGAGGTCTTCAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgt------tcgtttgctctcttctctgtgtatatatatgcatatggttttctg--ttgtttttttgtgttttttccttgttttgtt--cgtattttgatgattttgttgaatgggtgtttgtgggtattgcag-------------
 | |||||  | |      |   |    ||| | || |  || ||||||||| |||| | | | ||| | || |||||| |||||||||||||||||||||||      ||       | ||   |        |   | |   | | || | |  |||   | ||  || | | |||  | | | |  |||   | | || |      |  | || | | ||| ||  |                 
GACGGAGGCTCCGGGGGGCCGTACACCTCCC-GCACGGCCGAGGAGGTCTTCCGCGACTTCCGCGGCCGCCGCGCCGGCATGATCAAGGCCCTCACCACCGgtaatctctccccccgcccctctccctcccgcttccttactgttagcttccggatttgcgctgttcggtctctccctgatgtcgctgacgtgcctcgttgctgcc--cggcttggggctggtgtgttgttttctttttgtgtgtag

upper sequence: Vv12s0035g01980.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os01g66420.1 (Oryza sativa), 5'ss of exon 1
-ATGGAGGGACTGCCACCACACCCGGTACCCAGAACTGTTGAAGAGGTCTTCAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtt-tgctctcttctctgtgtatatatatgcatatggttttctgttgtttttttgtgtttt--ttccttgttttgttcgtattttgatgattttgttgaatgggtgtttgtgggtattgcag
   || ||    |   |  |   ||  || | | || |  || ||||||||| ||||   | | ||| | || |||||| ||||||||||||||||||||||| ||    || | |    |      ||            ||   |    |  ||  ||||  |    |  ||||||  || | |                                         
GGAGGCGGAGGCGGGGCACCGTACGCCACGC-GCACGGCGGAGGAGGTCTTCCGCGACCTCCGGGGCCGCCGCGCCGGCATGATCAAGGCCCTCACCACCGgtacgccgcgcgcgcgctccctcccttacccgatttctcagtcgccccgcggattcgtgtgactgagctggttgtttgttttgcag----------------------------------------

upper sequence: Vv12s0035g01980.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G172001_T02 (Zea mays), 5'ss of exon 1
ATGGAGGGACTGCCACCACACCCGGTACCCAGAAC--TGTTGAAGAGGTCTTCAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgctctcttctctgtgtatatatatgcatatggttttctgttgtttttttgtgttttttccttgttttgttcgtattttgatgattttgttgaatgggtgtttgtgggtattgcag
  || ||  |||      | |||    ||  | ||   |  || ||||||||| |||| |||| |||| | || |||||| ||||||||||||||||||| ||| ||  | | |||  | |   | ||   |   |   || || | |  ||| |   ||  ||  | |  | |   |   |  |||   |  || |||  ||                      
--GGGGGCTCTGGGCTGGCGCCCAACGCCGCGCACACCGCGGACGAGGTCTTCCGCGACTACAAAGGCCGCCGCGCCGGCATGATCAAGGCCCTCACCACTGgtacgccttcgctcgccccgccg-at---tggccccctgattctgtcctgtctgcgtggattcatgcgat-tgacgcggggttttctcttgttctgtgcaag---------------------

upper sequence: Vv12s0035g01980.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G080917_T02 (Zea mays), 5'ss of exon 1
ATGGAGGGACTGCCACCACACCCGGTACCCAGAAC--TGTTGAAGAGGTCTTCAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgctctcttctctgtgtatatatatgcatatggttttctgttgtttttttgtgttttttccttgttttgttcgtattttgatgattttgttgaatgggtgtttgtgggtattgcag
  || ||  | |   |  | |||    ||  | ||   |  |||||||||||| |||| |||| || | | || |||||| |||||||||| |||||||||||| ||  | ||     |||||   ||   |  ||   || || | |   |  |   ||  ||  | |   | ||  | ||    ||     || || ||    |                   
--GGGGGCTCCGGGCCGGCGCCCAACGCCGCGCACACCGCGGAAGAGGTCTTCCGCGACTACAAAGCCCGCCGCGCCGGCATGATCAAGGCACTCACCACCGgtacgcct-ctgcacgctctgccgat---tgggctcctgattctgtcccggctgcgtggattcgtgc---gattgatgcgggggttttctcttatgctgtgcag-------------------

upper sequence: Vv12s0035g01980.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA17G00630.1 (Glycine max), 5'ss of exon 1
---ATGGAGGGACTGCCACCACACCCGGTACCCAGAACTGTTGAAGAGGTCTTCAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgctctcttctctgtgtatatatatgcatatggttttctgttgtttttttgtgttttttccttgttttgttcgtattttgatgattttgttgaatgggtgtttgtgggtattgcag
   ||||| ||| |   ||| |||||  |||||||||| || |||||||| |||| |||||  |  |||||||| ||||| ||||||||||| ||||| |||||| || |    |||||    || | | | |||   |||  ||||        | ||       | | ||| | |||   | |                                         
AATATGGAAGGAGT---ACCGCACCCAATACCCAGAACAGTCGAAGAGGTTTTCACCGATTTTAAGGGCAGACGCGCCGGTTTGATCAAGGCTCTCACTACCGgtacgcta---ctctttctcgtttttctttat---tattatttt--------tattcacaccctcttcttctcttgcctgcag----------------------------------------

upper sequence: Vv12s0035g01980.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA07G40170.1 (Glycine max), 5'ss of exon 1
---ATGGAGGGACTGCCACCACACCCGGTACCCAGAACTGTTGAAGAGGTCTTCAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgctctcttctctgtgtatatatatgcatatggttttctgttgtttttttgtgttttttccttgttttgttcgtattttgatgattttgttgaatgggtgtttgtgggtattgcag
   ||||| ||| |   ||| |||||  ||||||||||||| |||||||| |||| |||||  |  |||||||| || || ||||| ||||||||||| || ||| || |     |   | || |     | | |     |   ||  |  | || |||| | ||||   ||   ||  |   |   |||  |                                 
CTTATGGAAGGAGT---ACCGCACCCAATACCCAGAACTGTCGAAGAGGTTTTCACCGATTTTAAGGGCAGACGCGCTGGTTTGATTAAGGCCCTCACTACTGgtacgctactctttcgccctttcctcctttttattcttttattatttatattcttttttattttacactctcttcttctcttgcttgcag---------------------------------

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|30296137|gb|CB972931.1|CB972931
EST:     CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCG                         AAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
genomic: CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgc ... ggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
EST: gi|110712767|gb|EE088111.1|EE088111
EST:     CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCG                         AAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
genomic: CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgc ... ggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
EST: gi|161715590|gb|FC068346.1|FC068346
EST:     CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCG                         AAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
genomic: CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgc ... ggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
EST: gi|110368641|gb|EC932630.1|EC932630
EST:     CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCG                         AAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
genomic: CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgc ... ggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
EST: gi|110702763|gb|EE079018.1|EE079018
EST:     CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCG                         AAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG
genomic: CAGCGATTACAGAGGCAGACGTGCCGGCTTGATCAAGGCCCTCACCACCGgttcgtttgc ... ggtattgcagAAGTTGAAAAGTTCTACCAGCAGTGCGATCCTG