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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttgagttattgttttgttttgtttgggcctttcttttgacaactccatcatataagagtgaaactctcactgaccattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGGACCTTGCTTTCTTTAATAGACGTCTTACCTCTATTTTCTAACACGGCCT

Basic information

species Vitis vinifera
transcript Vv01s0026g00920.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0026g00920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os09g22440.1 (Oryza sativa), 3'ss of exon 2
--gtatgcttgagttattgttttgttttgtttgggcctttcttttgacaactccatcatataag----agtgaaac--tctcactgaccattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGGACCTTGCTTTCTTTAATAGACGTCTTACCTCTATTTTCTAACACGGCCT
  || |  |      |  ||||  ||   |       || |  |  |  |    |||| || |     | ||| ||  |||  |       ||| ||||| ||||| || ||||||||||| |||||||||||||| |||||||| || || ||| | ||||| || || ||| ||||| | ||||| || || |  |
gtgtgttttcttcccaaagtttctttccctcctttttttaccatgcaatatcttatcaaattaatcttaatgatacaatctttcgtgtttgtgatcagGTGAAGCAACACGGCATCTCTGTTTTTCTCATGCCATCTGGGATGCTTGGAACTTTGTTATCTTTGATTGATGTCCTACCTTTGTTTTCCAATACTGGTT

upper sequence: Vv01s0026g00920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os08g32910.1 (Oryza sativa), 3'ss of exon 2
------gtatgcttgag-ttattgttttgttttgtttgggcctttcttttgacaactc-catcatataagagtgaaactctcactgaccat---tgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGGACCTTGCTTTCTTTAATAGACGTCTTACCTCTATTTTCTAACACGGCCT
         | ||  || ||||| | |||||||||||     || |  ||| | | |    |  | | | | |||  ||    ||    ||   ||| ||||| ||||||||||||||  |  |||||||||||||||| || ||||||||||| ||| | ||| | || || ||| ||||||| || || |||||    |
gtacgtcccttctgaaggttattttcttgttttgtttttcttttacaattggctattggtgttttttcacactgattctaatgctccatatatgtgatcagGTGAAGCAGCATGGCATTGCCATATTTCTCATGCCATCTGGAATGCTGGGGACGTTGTTGTCTCTGATTGATGTCATACCTCTGTTCTCAAACACTATTT

upper sequence: Vv01s0026g00920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G04400.1 (Glycine max), 3'ss of exon 2
----------gtatgcttgagttattgttttgttttgtttgggcctttcttttgacaactccatcatataagagtgaaactctcactgaccattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGGACCTTGCTTTCTTTAATAGACGTCTTACCTCTATTTTCTAACACGGCCT
           | |  ||   ||  | || | || |||||     ||| ||              |  |  |   |  | | |   | |  | | | |||||||||| ||||||  | ||||| |||||||||||||| ||||||||||| ||  | |||||| || | || || || |||||||| |||||||| || |
gtattttcccttttctttttttttgttttctattctgttttaattttttttaatgtggagtagcaacttcggcaaggtaatattcttaataaattatcagGTAAAGCTGCATGGGGTTTCTGTGTTTCTCATGCCATCTGGGATGCTGGGAACGCTCCTTTCTCTAGTTGATGTTTTGCCTCTATTCTCTAACACTGCAT

upper sequence: Vv01s0026g00920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G03160.1 (Glycine max), 3'ss of exon 2
---------gtatgcttgagttattgttt--tgttttgtttgggcctttctttt-------gacaactccatcatataagagtgaaactctcactgaccattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGGACCTTGCTTTCTTTAATAGACGTCTTACCTCTATTTTCTAACACGGCCT
          | | ||| | || ||||||  |||| |||||    |||| ||||       ||     | |  | | ||  || | | ||||||| |  ||| | |||||||||| ||||||  | ||||| |||||||||||||| ||||||||||| ||  | |||||| |  | || || || |||||||| || ||||| || |
gtattttcccttttctttatttgttgttttctgttctgttttaatcttttttttttaatgtgaagtagcaactacagaaaggtaatattctcactaa--att-atcagGTAAAGCGGCATGGGGTTTCTGTGTTTCTCATGCCATCGGGGATGCTGGGAACGCTCCTTTCTCTGGTTGATGTTTTGCCTCTATTCTCGAACACTGCAT

upper sequence: Vv01s0026g00920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G70160.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatgcttgagttattgttttgttttgtttgggcctttcttttgacaac-tccatcatataagagtgaaactctcactgaccattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGGACCTTGCTTTCTTTAATAGACGTCTTACCTCTATTTTCTAACACGGCCT
       |  ||| ||| |||  ||  | |      |  | || | |   |   |  | |  |  |  |        |   |  |||| |||| ||| |||||||| | || || ||||| ||||||||||| ||||| ||||| ||||| ||||| || || || |||||||| || || || || || |
------gtaggtttttgatttagttaatcttctttatagtcttaagagggtttgtggtgtttgttttcatggtgatttcttcgatgagtagGTGAAGGAGCATGGCGTTTCAGTGTTTCTAATGCCATCAGGAATGCTTGGGACGTTGCTATCTTTGATTGATGTGTTACCTCTTTTCTCCAATACTGCTT

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|110708417|gb|EE085938.1|EE085938
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAAGGATGCTGGGG
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
EST: gi|71859638|gb|DT008693.1|DT008693
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
EST: gi|161719352|gb|FC064843.1|FC064843
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
EST: gi|110687415|gb|EE064806.1|EE064806
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
EST: gi|18458236|gb|BM436514.1|BM436514
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCA
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCA
EST: gi|351025013|gb|FQ433430.1|FQ433430
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
EST: gi|351030083|gb|FQ430825.1|FQ430825
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGGACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttttgacaactccatcatataagagtgaaactctcactgaccattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGGACCTTGCTTTCTTTAATAGACGTCTTACCTCTATTTTCTAACACGGCCT
                                      cactgac  putative branch site (score: 2)
                 atcatataa  TA-rich tract