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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagagattagcatgtcatgtttttcttatttgcatttggtttctacctcatcttctcaacttcgatttccaaacttgaagcttaaaacagttaagaaaaagaagaggatgctgaaaaatgatgaacagcattgtaaattgttgcctggtttaatatcgtcatattgttacatgctgtgattgcagAAGTGACAGGAAAAGCAATTGAAGAAACTGCAGCAGTTGTATTGAGACTTTACCATGACCGGAAGCATAAGTGCTCAATGCCAAGAATCTCGAAACGGTA

Basic information

species Vitis vinifera
transcript Vv10s0116g00390.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0116g00390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G39830.1 (Glycine max), 3'ss of exon 2
gtgagagattagcatgtcatgtttttcttatttgcatttggtttctacctcatcttctcaacttcgatttccaaacttgaagcttaaaacagttaagaaaaagaagaggatgctgaaaaatgatgaacagcattgtaaattgttgcctggtttaatatcgtcatattgttacatgctgtgattgcagAAGTGACAGGAAAAGCAATTGAAGAAACTGCAGCAGTTGTATTGAGACTTTACCATGACCGGAAGCATAAGTGCTCAATGCCAAGAATCTCGAAACGGTA
                               |  ||  |   || ||||  |  ||||||  |  |   ||     |||| | ||| |  | || |  ||| |          || |||||| |         |  ||| |  ||| |    | || || | || ||||||     | | ||| |||| ||||| |||||||| || ||||| |||||||||||||||||||| || ||||||||| ||||||| |  ||| | |||||||| ||||| ||||| ||
------------------------------gtaacaaatttattttaccctag-ttctcatttctgtcatct----ttgatg-ttacattaattcatgaaaggggt------ttggaaaatgttag------cttcaaactaatgctta---tgatgtcttaat-ttgtta-----tctaattacagATGTGACTGGAAAAGCCATAGAAGAGACTGCAGCAGTTGTATTGAGGCTGTACCATGACAGGAAGCACATATGCACCATGCCAAGGATCTCAAAACGCTA

upper sequence: Vv10s0116g00390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G27860.1 (Glycine max), 3'ss of exon 2
gtgagagattagcatgtcatgtttttcttatttgcatttggtttctacctcatcttctcaacttcgatttccaaacttgaagcttaaaacagttaagaaaaagaagaggatgctgaaaaatgatgaacagcattgtaaattgttgcctggtttaatatcgtcatattgttacatgctgtgattgcagAAGTGACAGGAAAAGCAATTGAAGAAACTGCAGCAGTTGTATTGAGACTTTACCATGACCGGAAGCATAAGTGCTCAATGCCAAGAATCTCGAAACGGTA
                               |  ||  |   || |||| ||  ||||||  |  |   ||     |||| | ||| |  |||| |  |||||  |       || |||||| |         |  ||| |  ||| |  |   || || | || ||||||     | | ||| |||| ||||| |||||||| || ||||| |||||||||||||||||||| || ||||||||| ||||||| || |||   |||||||| ||||| ||||| ||
------------------------------gtaacaaatttattttacc-caagttctcatttctgtcgtct----ttgatg-ttacattagttcatgaaaagggg------ttggaaaatgttag------cttaaaactaatgcttatt---atgtcttaat-ttgtta-----tctaattacagATGTGACTGGAAAAGCCATAGAAGAGACTGCAGCAGTTGTATTGAGGCTGTACCATGACAGGAAGCACAAATGCATCATGCCAAGGATCTCAAAACGCTA
















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|349823738|gb|FQ415149.1|FQ415149
EST:     GGAATTTGCTGGCAAGATTTTTGCACAAAATCCCGCCTGGCCTGTAATCG                         AAGTGACAGGAAAAGCAATTGAAGAAACTGCAGCAGTTGTATTGAGACTTT
genomic: GGAATTTGCTGGCAAGATTTTTGCACAAAATCCCGCCTGGCCTGTAATCGgtgagagatt ... gtgattgcagAAGTGACAGGAAAAGCAATTGAAGAAACTGCAGCAGTTGTATTGAGACTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtaaattgttgcctggtttaatatcgtcatattgttacatgctgtgattgcagAAGTGACAGGAAAAGCAATTGAAGAAACTGCAGCAGTTGTATTGAGACTTTACCATGACCGGAAGCATAAGTGCTCAATGCCAAGAATCTCGAAACGGTA
                 gtttaat  putative branch site (score: 4)
                  tttaatat  TA-rich tract