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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctttcaagaataattgttactattagcaatctcttaattgaggttcagatgttgatgctagtaatatgtgagcctttgttatctaattttgcctgcccttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTTATGCCTTGATGAAATTATTGATGGCGG

Basic information

species Vitis vinifera
transcript Vv10s0003g02760.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g02760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G13190.3 (Glycine max), 3'ss of exon 3
-gtatctttcaagaataattgttactattagcaatctcttaattgaggttcagatgttgatgctagtaatatgtgagcctttgttatctaattttgcctgcccttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTTATGCCTTGATGAAATTATTGATGGCGG
  | |  |   | | |||   ||  | |  |     | || |  |  |||   |   |    ||| ||| |    || | ||| |   |  |  |||||   |   | ||||| |||||||| ||||||||||| ||||| |||||||||||| | ||||| || ||| ||||||||||| ||||||||||
gttgtaatcttatattaacaatttatctatgtttcgtgttcaagggtgttttcaatctatcactattaacacagtagtccttgatgattt-tactgccttttcc--cctccagAGGCAATGTAGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG

upper sequence: Vv10s0003g02760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G13190.2 (Glycine max), 3'ss of exon 3
-gtatctttcaagaataattgttactattagcaatctcttaattgaggttcagatgttgatgctagtaatatgtgagcctttgttatctaattttgcctgcccttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTTATGCCTTGATGAAATTATTGATGGCGG----------------------
  | |  |   | | |||   ||  | |  |     | || |  |  |||   |   |    ||| ||| |    || | ||| |   |  |  |||||   |   | ||||| |||||||| ||||||||||| ||||| |||||||||||| | ||||| || ||| ||||||||||| ||||||||||                      
gttgtaatcttatattaacaatttatctatgtttcgtgttcaagggtgttttcaatctatcactattaacacagtagtccttgatgattt-tactgccttttcc--cctccagAGGCAATGTAGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGGTATGCTATATGCTATTCATAT

upper sequence: Vv10s0003g02760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G02270.2 (Glycine max), 3'ss of exon 3
---gta-tctttcaagaataattgttactattagcaatctcttaattgaggttcagatgttgatgctagtaatatgtgagcctttgttatctaattttgcc-tgcccttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTTATGCCTTGATGAAATTATTGATGGCGG----------------------
   ||  |||| ||  || ||||  || |||   | || | | ||  | | ||   ||  |    ||| ||| |    || | ||| |     ||||| |  |    |  | || || |||||||||||||||||||| ||||| |||||||||||| | ||||| || ||| | ||||||||| ||||||||||                      
gttgtggtcttacataaacaatttata-tatgttccatgt-tcaagggtgtttttaat-ctatcactattaacacagtagtccttgatg----attttactgtcttttcccctctagAGGCAATGTGGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATAGATGAAATTGTTGATGGCGGGTATGCTATATGCTATTCATAT

upper sequence: Vv10s0003g02760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G02270.3 (Glycine max), 3'ss of exon 3
---gta-tctttcaagaataattgttactattagcaatctcttaattgaggttcagatgttgatgctagtaatatgtgagcctttgttatctaattttgcc-tgcccttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTTATGCCTTGATGAAATTATTGATGGCGG
   ||  |||| ||  || ||||  || |||   | || | | ||  | | ||   ||  |    ||| ||| |    || | ||| |     ||||| |  |    |  | || || |||||||||||||||||||| ||||| |||||||||||| | ||||| || ||| | ||||||||| ||||||||||
gttgtggtcttacataaacaatttata-tatgttccatgt-tcaagggtgtttttaat-ctatcactattaacacagtagtccttgatg----attttactgtcttttcccctctagAGGCAATGTGGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATAGATGAAATTGTTGATGGCGG

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|71874497|gb|DT023552.1|DT023552
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|351019718|gb|FQ439535.1|FQ439535
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|110373435|gb|EC937671.1|EC937671
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|30137194|gb|CB922532.1|CB922532
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|110379625|gb|EC944835.1|EC944835
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|110699583|gb|EE076708.1|EE076708
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|110722790|gb|EE099364.1|EE099364
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|110715992|gb|EE090583.1|EE090583
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|351018368|gb|FQ439180.1|FQ439180
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|351040188|gb|FQ425274.1|FQ425274
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|110701897|gb|EE079989.1|EE079989
EST:     TTAGCTACAGTTCTCCAAAGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|110417687|gb|EC983761.1|EC983761
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|32250089|gb|CD715908.1|CD715908
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|77581566|gb|DV219730.1|DV219730
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|110686798|gb|EE064846.1|EE064846
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|349832724|gb|FQ422082.1|FQ422082
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|30256223|gb|CB972066.1|CB972066
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|32250057|gb|CD715876.1|CD715876
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
EST: gi|351043288|gb|FQ444009.1|FQ444009
EST:     TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAG                         GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT
genomic: TTAGCTACAGTTCTCCAAGGGTTTTTTGATGCAGTTGGTCTTCTCCTTAGgtatctttca ... ttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgctagtaatatgtgagcctttgttatctaattttgcctgcccttgcttccagGGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTTATGCCTTGATGAAATTATTGATGGCGG
                           atctaat  putative branch site (score: 3)
                                      cctgcccttgcttcc  putative PPT
                     tttgttatctaatttt  TA-rich tract