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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttgattactgttagaaggccccttcacatcttttagttgccttttgctctggtaatttactcaatagtgggtttttttttggcagGAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCAATTAATACAGTCATATGTGGAAAGGCAAGGTCGTGCGCCCATTGATTGG

Basic information

species Vitis vinifera
transcript Vv13s0019g05390.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g05390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os09g39690.1 (Oryza sativa), 3'ss of exon 3
-gtacttgattactgttagaaggccccttcacatcttttagttgccttttgctctggtaatttactcaatagtgggtttttttttggcagGAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCAATTAATACAGTCATATGTGGAAAGGCAAGGTCGTGCGCCCATTGATTGG
  |  || ||| || | |  | |    |          || ||   |  | ||| |   |  |||| |||     || ||  ||  |||| || ||||| || |||||||| | ||||| ||||||||| | ||| |||| | | || | ||||||||| ||||||||||||||||| ||  |   ||||
gtttttttatttctttcatgaagaaagtctctgcaacatatttctttagttctcagcgtaaatactgaatta---gtgttcattctgcagAAGGAGTGTTTCTAATCTTCTTCATAGTGCTTTTCGTGAAAATTTGGACCGACTTATCCGGTCATATGTTGAAAGGCAAGGTCGTGCTCCTCTCTCTTGG

upper sequence: Vv13s0019g05390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G33300.1 (Glycine max), 3'ss of exon 5
---------gtacttgattactgttagaaggccccttcacatcttttagttgccttttgctctggtaatttactcaatagtgggtttttttttgg----cagGAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCAATTAATACAGTCATATGTGGAAAGGCAAGGTCGTGCGCCCATTGATTGG
         ||||| ||  |  |||   |   |  ||     |||| | || | | ||||         ||| |      ||| ||||| ||       |||||||||||| || || ||||| ||||||||||| ||||| ||| | ||||||||||||||||||||||||||||||||||||||||| || ||||| |||
gtcgagattgtact-gaacatggttgatacttcatttattggctttcattt-cttcttgccaccaagccttattattgtatggatttttattcatgtttcagGAGAAGTGTTTCTAACCTTCTTCGTAGTGGTTTCCGTGAAAGTCTGGACCAATTAATACAGTCATATGTGGAAAGGCAAGGTCGTGCACCAATTGACTGG

upper sequence: Vv13s0019g05390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G34240.1 (Glycine max), 3'ss of exon 6
-----gtacttgatta--ctgttagaaggccccttcacatcttttagttgccttttgctctggtaatttact-caatagtgggtttttttttgg----cagGAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCAATTAATACAGTCATATGTGGAAAGGCAAGGTCGTGCGCCCATTGATTGG
      ||  ||| ||  |  ||   |   |  ||     |||| | || | | | ||         |||      |  ||| ||||| ||       |||||||||||| || || ||||| ||||||||||| ||||| ||| | |||||| |||||||||||||||||||||||||||||||||| || ||||| |||
aaaatctaaatgagtatgccatttatacttcatttattggctttcattt-cttctagccaccaagccttatgattgttatggatttttattcatgtttcagGAGAAGTGTTTCTAACCTTCTTCGTAGTGGTTTCCGTGAAAGTCTGGACCAACTAATACAGTCATATGTGGAAAGGCAAGGTCGTGCACCAATTGACTGG

upper sequence: Vv13s0019g05390.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G04460.2 (Arabidopsis thaliana), 3'ss of exon 4
------------------gtacttgattactgttagaaggccccttcacatcttttagttgccttttgctctggtaatttactca---atagtgggtttttttttggcagGAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCAATTAATACAGTCATATGTGGAAAGGCAAGGTCGTGCGCCCATTGATTGG
                    || |  ||       |  |     ||  | |  |||| || ||||    ||||  |  ||  | |    ||  |  |||| | || ||||||||||||| || ||||| |||| ||||||||| ||||| ||| | || ||| | |||||||||||||  ||||||  ||| |   | | | | || |||
gtactaaaaaggttttagccacatttttgacaaaggtggatttgttttcgttcttta-ttaccttgatttctgtgagattgatgatttctaccgtcttttctgtttgcagGAGAAGTGTTTCTAATCTACTACATAGTGGTTTCCGTGAAAGTCTTGATCAACTGATACAGTCATATGCTGAAAGGAGAGGACACACTCACGTAGACTGG

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|110362870|gb|EC926428.1|EC926428
EST:     CCAGATGATGATAATGTATACAGTATGGAACTCAGAGAACTTCTCAGCAG                         GAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCA
genomic: CCAGATGATGATAATGTATACAGTATGGAACTCAGAGAACTTCTCAGCAGgtacttgatt ... tttttggcagGAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCA
EST: gi|30302439|gb|CB979233.1|CB979233
EST:     CCAGATGATGATAATGTATACAGTATGGAACTCAGAGAACTTCTCAGCAG                         GAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCA
genomic: CCAGATGATGATAATGTATACAGTATGGAACTCAGAGAACTTCTCAGCAGgtacttgatt ... tttttggcagGAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCA
EST: gi|110697361|gb|EE074284.1|EE074284
EST:     TGATGATAATGTATACAGTATGGAACTCAGAGAACTTCTCAGCAG                         GAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCA
genomic: TGATGATAATGTATACAGTATGGAACTCAGAGAACTTCTCAGCAGgtacttgatt ... tttttggcagGAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCA
EST: gi|110722021|gb|EE097887.1|EE097887
EST:     CCAGATGATGATAATGTATACAGTATGGAACTCATAGAACTTCTCAGCAG                         GAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCA
genomic: CCAGATGATGATAATGTATACAGTATGGAACTCAGAGAACTTCTCAGCAGgtacttgatt ... tttttggcagGAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCA
EST: gi|33404749|gb|CF210376.1|CF210376
EST:     CCAGATGATGATAATGTATACAGTATGGAACTCAGAGAACTTCTCAGCAG                         GAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCA
genomic: CCAGATGATGATAATGTATACAGTATGGAACTCAGAGAACTTCTCAGCAGgtacttgatt ... tttttggcagGAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCA
EST: gi|30136916|gb|CB922254.1|CB922254
EST:     CCAGATGATGATAATGTATACAGTATGGAACTCAGAGAACTTCTCAGCAG                         GAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCA
genomic: CCAGATGATGATAATGTATACAGTATGGAACTCAGAGAACTTCTCAGCAGgtacttgatt ... tttttggcagGAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttagttgccttttgctctggtaatttactcaatagtgggtttttttttggcagGAGAAGTGTCTCAAATCTTCTACGTAGTGGTTTTCGTGAGAGTTTAGACCAATTAATACAGTCATATGTGGAAAGGCAAGGTCGTGCGCCCATTGATTGG
                                         ttttttttt  CT-rich tract
                      taatttactcaata  TA-rich tract