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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatacaaggggattccttagctttgcattgtgaccggctttcttttcttacctatgttaacattgattaaaatatgcagGTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGGGAACTTCTTCTTCGTGCTCGTGCAATTGAGACTCAGTGCTAT

Basic information

species Vitis vinifera
transcript Vv13s0067g03530.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g03530.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g31830.1 (Oryza sativa), 3'ss of exon 5
-----------------------------------------------------gtacatacaagg-ggattccttagctttgcattg-tgaccggc---tttcttttcttacctatgttaacat-tgattaaaatatgcagGTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGGGAACTTCTTCTTCGTGCTCGTGCAATTGAGACTCAGTGCTAT
                                                        |||||  |    ||  || ||    ||   | |||   ||   ||  ||| |     | |  ||| ||   | | |  | |  ||||  || | || ||  | || |||||||||||||||||  | || ||||||||| ||||||| || |||||||| |||||||| || ||||||
gtagtgatttatggcattatactgacataagtttttcctgattgccttatcctaagcatacctgtcatatctctgaggaaagctcaggtgaattgcatattgttttccagtattcttctaatatgccagtgacctttttagGTCTTACTAGTACCATCCGCGTTCACAAAAGTAACTGGGGAGGCGCACTGGGAAATTCTTCTCCGAGCTCGTGCCATTGAGACACAATGCTAT

upper sequence: Vv13s0067g03530.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G145578_T01 (Zea mays), 3'ss of exon 5
---------------------------------------gtacatacaaggggattcctta--gctttgcattgtgaccggctttcttttcttacctatgttaacattgattaaaatatgcagGTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGGGAACTTCTTCTTCGTGCTCGTGCAATTGAGACTCAGTGCTAT
                                        | |||   |  |||| || |       |  |  |||    ||     | | ||   |         || |||         ||||  || | |||||  | || ||||||||  |||| ||  | |||||||||||| |||| || || ||||||||||||||||| || || |||
gtggttacacattctaatatacttcacacagtcaatatgattcattatattggatgccctcctatcatagaaagtgtagagcagatgtatattttgtgatcctgtcttaattttgtctcatagGTATTACTAGTGCCATCTGCATTCACAAAGATAACGGGAGAGGCACACTGGGAAATTCTCCTCCGAGCTCGTGCAATTGAGACACAATGTTAT

upper sequence: Vv13s0067g03530.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G43950.1 (Glycine max), 3'ss of exon 5
gtacatacaaggggattccttagctttgcattgtgaccggctttct-tttcttacct--atgttaacattgattaaaatatgcagGTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGGGAACTTCTTCTTCGTGCTCGTGCAATTGAGACTCAGTGCTAT
|||   | ||| |||    |||  ||     |   | ||| | | | | |   | ||  || ||   ||   ||| || || ||||| ||| ||||||||||||| ||||||| |||||| ||| |||||||||||||  ||||||||||||| ||||||||||||||||| ||||||
gta---ataagtggaaatattactttcctgcttaaatcggttgtttgtctacaatctaaattttcttatgttttacaacatccagGTACTACTGGTGCCTGCAGCATTCACAACAGTAACAGGTGAAGCACACTGGGAGATTCTTCTTCGTGCCCGTGCAATTGAGACTCAATGCTAT

upper sequence: Vv13s0067g03530.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G38690.1 (Glycine max), 3'ss of exon 7
gtacatacaaggggattccttagctttgcattgtgaccggctttcttt--tcttacctatgttaacattgattaaaatatgcagGTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGGGAACTTCTTCTTCGTGCTCGTGCAATTGAGACTCAGTGCTAT
||| |||   ||  ||          ||| ||   |  || | |||    ||| |  | |  |    ||  ||| || || ||||| ||| ||||||||||||| ||||||| |||||||||| ||||||| |||||  ||||||||||||| |||| |||||||||||| ||||||
gta-ataagtggaaatattactttcctgc-ttaaaatgggttgtctacaatctaaatttttcttgtgtt--ttacaacatccagGTACTACTGGTGCCTGCAGCATTCACAACAGTAACTGGTGAAGCACATTGGGAGATTCTTCTTCGTGCCCGTGTAATTGAGACTCAATGCTAT

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|29785197|gb|CB341985.2|CB341985
EST:     CAGAGCTTTATCAGCAGCTAAGGTTCCTACACGATGCACAG                         GTTCTATTGGTGCCTGCAGCTTTCACAAAAGTATCTGGTCAAGCACACTGG
genomic: CAGAGCTTTATCAGCAGCTAAGGTTCCTACACGATGCACAGgtacatacaa ... aaatatgcagGTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGG
EST: gi|71860719|gb|DT009774.1|DT009774
EST:     TGAGATTCCCAGAGCTTTATCAGCAGCTAAGGTTCCTACACGATGCACAG                         GTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGG
genomic: TGAGATTCCCAGAGCTTTATCAGCAGCTAAGGTTCCTACACGATGCACAGgtacatacaa ... aaatatgcagGTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGG
EST: gi|22009600|gb|BQ794634.1|BQ794634
EST:     TGAGATTCCCAGAGCTTTATCAGCAGCTAAGGTTCCTACACGATGCACAG                         GTTCTATTGGTGCCTTCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGG
genomic: TGAGATTCCCAGAGCTTTATCAGCAGCTAAGGTTCCTACACGATGCACAGgtacatacaa ... aaatatgcagGTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGG
EST: gi|110719000|gb|EE096473.1|EE096473
EST:     TGAGATTCCCAGAGCTTTATCAGCAGCTAAGGTTTCTACACGATGCACAA                         GTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGG
genomic: TGAGATTCCCAGAGCTTTATCAGCAGCTAAGGTTCCTACACGATGCACAGgtacatacaa ... aaatatgcagGTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGG
EST: gi|29785164|gb|CB341917.2|CB341917
EST:     TGAGATTCCCAGAGCTTTATCAGCAGTTAAGGTTCCTACACGATGCACAG                         GTNCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGGCAAGCACACTGG
genomic: TGAGATTCCCAGAGCTTTATCAGCAGCTAAGGTTCCTACACGATGCACAGgtacatacaa ... aaatatgcagGTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGG
EST: gi|46917918|gb|CN547247.1|CN547247
EST:     TGAGATTCCCAGAGCTTTATCAGCAGCTAAGGTTCCTACACGATGCACAG                         GTTCTATTGGTGCCTTCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGG
genomic: TGAGATTCCCAGAGCTTTATCAGCAGCTAAGGTTCCTACACGATGCACAGgtacatacaa ... aaatatgcagGTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcattgtgaccggctttcttttcttacctatgttaacattgattaaaatatgcagGTTCTATTGGTGCCTGCAGCTTTCACAAAAGTAACTGGTCAAGCACACTGGGAACTTCTTCTTCGTGCTCGTGCAATTGAGACTCAGTGCTAT
                            tatgttaacattgatt  TA-rich tract