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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacccgtcatagtattttgcttttttggtttcttcccctttctttgttttagcaggcaggggtgattaaattaacgtgcagGTTCAAGTTGCCGGAGAACTCGATCCCGAAGGAGGCGGCGTACCAGATCATAAACGACGAACTGATGCTTGATGGCAATCCTAGGCTAAACCTGGCTTCG

Basic information

species Vitis vinifera
transcript Vv01s0011g06600.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g06600.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G40840.1 (Glycine max), 3'ss of exon 1
--------------------------------------------------------------------------------gtaaacccg--tcatagtatt----ttgcttttttggtt-tcttcccctttctttgttttagcaggcaggggtgattaaattaacgtgcagGTTCAAGTTGCCGGAGAACTCGATCCCGAAGGAGGCGGCGTACCAGATCATAAACGACGAACTGATGCTTGATGGCAATCCTAGGCTAAACCTGGCTTCG
                                                                                 ||||  ||  | ||   ||     | ||  |   | |  |  | |  ||     || | |  |      |  | |||| |     |||||||||||| || ||||| | |||||||||||||| || ||||||||||||||| ||||||| |||||||| || || ||||| ||||| |||||||| |||
gttccttaattaatctctctttttcttcggtagatattaactattatcatgcttttaaattacctttatattacggaaaaataaatacggttgatgcgatcgggatcgcgatcgcgatcgtgatgcaattatcaagtgtcaaaatatcttgacg-ttaattgcggttgcagGTTCAAGATGGCGGAGGAATCGATCCCGAAGGAAGCCGCGTACCAGATCATACACGACGAGCTGATGCTGGACGGGAATCCGAGGCTGAACCTGGCGTCG

upper sequence: Vv01s0011g06600.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G39170.1 (Glycine max), 3'ss of exon 1
-gtaaacccgtcatagtattttgcttttttggtttcttcccctttctttgttttagcaggcaggggtgattaaattaacg--tgcagGTTCAAGTTGCCGGAGAACTCGATCCCGAAGGAGGCGGCGTACCAGATCATAAACGACGAACTGATGCTTGATGGCAATCCTAGGCTAAACCTGGCTTCG
  | |   |  |||| ||| |   ||  ||| || ||     | ||| | |||  |   |   |  || |   ||  | |  |||||||||||| || ||||| | ||| | |||||||| ||||||||||| |||||||||||||| || ||||| || || ||||| ||||| |||||||| |||
gttcatttctacata-tatatatattaattgattactctggatctctctctttctgatcgatagaatggt-ggatcgatgaatgcagGTTCAAGATGGCGGAGCAATCGGTTCCGAAGGAAGCGGCGTACCAAATCATAAACGACGAGCTAATGCTAGACGGGAATCCGAGGCTGAACCTGGCGTCG

upper sequence: Vv01s0011g06600.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G04940.1 (Glycine max), 3'ss of exon 1
--------------gtaaacccgtcatagtattttgcttttttggtttcttcccctttctttgtttta-gcaggcaggggtgattaaattaacgt--gcagGTTCAAGTTGCCGGAGAACTCGATCCCGAAGGAGGCGGCGTACCAGATCATAAACGACGAACTGATGCTTGATGGCAATCCTAGGCTAAACCTGGCTTCG
              ||    |  || |   |   |   | |   || |       | | ||| | ||| | | |     ||  || | || |  |    ||||||||| || ||||| | ||||| ||||||||||| || ||||||||||||||||||||  ||||| | ||||| || || ||| | ||  |||| || 
taacttttgtttttgtttttctttc-tcccaccatatatctcctgtgtgaagggttatatttatcttatggatgagtaagtatttgatttgatattgatagGTTCAAGATGGCGGAGGAGTCGATACCGAAGGAGGCAGCATACCAGATCATAAACGACGAGTTGATGTTGGATGGGAACCCAAGGTTGAATTTGGCATCA

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|352791108|gb|FQ477435.1|FQ477435
EST:     TCCGTGCACTCCACCTTTGCCTCTCGCTACGTGAAAGCTTCGCTTCCGAG                         GTTCAAGTTGCCGGAGAACTCGATCCCGAAGGAGGCGGCGTACCAGATCAT
genomic: TCCGTGCACTCCACCTTTGCCTCTCGCTACGTGAAAGCTTCGCTTCCGAGgtaaacccgt ... taacgtgcagGTTCAAGTTGCCGGAGAACTCGATCCCGAAGGAGGCGGCGTACCAGATCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtttcttcccctttctttgttttagcaggcaggggtgattaaattaacgtgcagGTTCAAGTTGCCGGAGAACTCGATCCCGAAGGAGGCGGCGTACCAGATCATAAACGACGAACTGATGCTTGATGGCAATCCTAGGCTAAACCTGGCTTCG
                                          aattaac  putative branch site (score: 2)
                                    tgattaaattaa  TA-rich tract