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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataaattatgtcttgcaagtttaacctgggttgttagaattctttattcacttatttctctttcttttgttaatttgcagGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCTTTCTCAGAAAATGGTTACTTCCTTGCG

Basic information

species Vitis vinifera
transcript Vv05s0049g01840.t01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os10g32880.1 (Oryza sativa), 3'ss of exon 11
-----gtaataaattatgtcttgcaagtttaacct----gggttgttagaattct-ttattcacttatttctctttcttttgttaatttgc---agGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCTTTCTCAGAAAATGGTTACTTCCTTGCG
      || |     |  || | ||||||     |    | |||  |  |  |||  | || |  ||  |  ||  |  |  |   ||| |   || ||||||| ||||  ||||| ||||| |||||  | || |||||||| || ||||| |||||||||||||||||||||
gtgtgatactccggcaactcattcaagttcttttttcaggtgttcatgcatgtctgctcttgaaataccttgctaacaatcatcttttttctctagTCAAATGTTGCAAAGTTTGAGGGGCATGTTGGACCAGTGACTGCTATGTCCTTCTCTGAAAATGGTTACTTCCTTGCG

upper sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G324540_T01 (Zea mays), 3'ss of exon 13
-------------gtaataaattatgtcttgcaagtttaacctgggttgttagaattctttattcacttatttctctttcttttgttaatttgcagGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCTTTCTCAGAAAATGGTTACTTCCTTGCG
              |      | |  |  | |||||||    |  | || |     |||| |  ||  | |     |  | ||| |  || || || ||||||| ||||  ||||| || || || ||  | || |||||||| |||||||| ||||||||||||||||| |||
gtgtgatttggtactgtggtgtcactttattcaagtttgtttttaggtgatcatgctcttaaaacatgtctgataatgacatttct--atctgtagTCAAATGTCGCAAAGTTTGAGGGTCATGTCGGACCAGTCACTGCTATGTCTTTCTCTGAAAATGGTTACTTCCTAGCG

upper sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA20G21330.1 (Glycine max), 3'ss of exon 13
gtaataaattatgtcttgcaa--gtttaacctgggttgttagaattct---ttattcacttatttct--ctttcttttgttaatttgcagGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCTTTCTCAGAAAATGGTTACTTCCTTGCG
|||| | ||| | ||||  |   ||||||  |    | |||  ||||    |||||| ||   ||||  | ||| |   ||  || | |||||||||| || || |||||||| || | |||| | |||||||| ||||||||||| || ||||| ||||||||||||
gtaa-acattttttcttatacttgtttaaagttcaattttaatattcaatgttattctctatgttcttaccttcctccattggtt-gtagGCAAATGTTGCTAGGTTTGACGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG

upper sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA10G26870.1 (Glycine max), 3'ss of exon 13
gtaataaattatgtcttgcaa---gtttaacctgggttgttagaattctttattcacttatttctctttcttttgttaatttgcagGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCTTTCTCAGAAAATGGTTACTTCCTTGCG
||||  |||| | ||||  |    ||||||  |    | |||  ||||  | ||   || || |   ||| |   ||  || | |||||||||| || || ||||| || || | |||| | |||||||| ||||||||||| || ||||| ||||||||||||
gtaaacaatttt-tcttatactttgtttaaagtttaattttaatattcactgttatgttcttacc--ttcctccattggtt-gtagGCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG

upper sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT2G33340.1 (Arabidopsis thaliana), 3'ss of exon 13
gtaataaattatgtcttgcaagtt---taacct----gggttgttagaattct------ttattcact-tatttctctttcttttgttaatttgcagGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCTTTCTCAGAAAATGGTTACTTCCTTGCG
|||| || |   | ||| |||  |   | ||||       || |||    | |      || |||| | || || || || ||||| |   |   ||||||||||||| |  ||||| || |||  |||||  || || |||||||||||||| ||||||||||||||||| |||
gtaaaaactatgggcttccaaactatatgacctattaaaattattaattgtgtacagtgttcttcattatagttttcatttttttggttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCTTTCTCTGAAAATGGTTACTTCCTCGCG

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|110422448|gb|EC988773.1|EC988773
EST:     GAACGGGTACCTCTGAGGCTCTTGTTAAAATTTGGGATGTAAAAAGTCAG                         GCAAACGTGGCAAGATTTGATGGGCATGTTGGGGCTGTAACTGCTATATCT
genomic: GAACGGGTACCTCTGAGGCTCTTGTTAAAATTTGGGATGTAAAAAGTCAGgtaataaatt ... taatttgcagGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCT
EST: gi|37184349|gb|CF603703.1|CF603703
EST:     GAACGGGTACCTCTGAGGCTCTTGTTAAAATTTGGGATGTAAAAAGTCAG                         GCAAACGTGGCAAGATTTGATGGGCATGTTGGGGCTGTAACTGCTATATCT
genomic: GAACGGGTACCTCTGAGGCTCTTGTTAAAATTTGGGATGTAAAAAGTCAGgtaataaatt ... taatttgcagGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCT
EST: gi|77580118|gb|DV218951.1|DV218951
EST:     GAACGGGTACCTCTGAGGCTCTTGTTAAAATTTGGGATGTAAAAAGTCAG                         GCAAACGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCT
genomic: GAACGGGTACCTCTGAGGCTCTTGTTAAAATTTGGGATGTAAAAAGTCAGgtaataaatt ... taatttgcagGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgggttgttagaattctttattcacttatttctctttcttttgttaatttgcagGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCTTTCTCAGAAAATGGTTACTTCCTTGCG
                                          tgttaat  putative branch site (score: 3)
              ttctttattcacttat  CT-rich tract
                                   tttcttttgttaattt  TA-rich tract