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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcatttgtttctgtccacattaggcctcaaaaattgatttgggtcgtaagtactattatctgaaagtgacaatacattcatcattcatagttttggaaattgactacattgttttgaatgcagAACTTGAAATCAGACCTCAGTTTGTGGCAATTGGGCACATTACCACCAGGCCTAATAGCATTCCATGGCCATGTACACGTTATAGATCCCTTCTGGCACA

Basic information

species Vitis vinifera
transcript Vv19s0014g05130.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g05130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G16550.1 (Glycine max), 3'ss of exon 5
------gtatgca-tttgtttctgtccacattag-gcctcaaaaattgatttgggt-cgtaagtactatt---atctgaaagt---gacaatacattcatcattcatagttttggaa---attgactacattgttttgaatgcagAACTTGAAATCAGACCTCAGTTTGTGGCAATTGGGCACATTACCACCAGGCCTAATAGCATTCCATGGCCATGTACACGTTATAGATCCCTTCTGGCACA
       || | | |||   ||   | | | ||  | |   |||| | | |    | | ||||   | ||   | || ||| |   |     | |||    |   ||||| |   ||   ||       ||| |  |  ||||||||  | |||||||||||||||||||||||  | || |||||||| || ||  |||||||||||||||| ||||| |||  ||| ||||| ||||||||||
gtatatataagtactttccatcctactataatactgtcaagaaaaataagtaaattacttaagatatgttcaaaactaaaatttgagtttccatattggagaaagatagtataataatacataattggtattatgctttatgcagAATATAAAATCAGACCTCAGTTTGTGGCAGCTAGGAACATTACCCCCTGGATTAATAGCATTCCATGGTCATGTCCACACTATTGATCCTTTCTGGCACA

upper sequence: Vv19s0014g05130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G41630.1 (Glycine max), 3'ss of exon 5
------gtatgca-tttgtttctgtccacattaggcctcaaaaattgatttgggtcgtaagtacta--ttatctgaaagtgacaatacattcatcattc---------atagttttggaa---attgactacattgttttgaatgcagAACTTGAAATCAGACCTCAGTTTGTGGCAATTGGGCACATTACCACCAGGCCTAATAGCATTCCATGGCCATGTACACGTTATAGATCCCTTCTGGCACA
       || | | |||   ||   | | | ||     ||  ||  ||    |    | | |  |   || |   ||| | | | |  | |   |||            |||| |   ||   | |   |   || | ||  ||||||||  | |||||||||||||||||||||||  | || |||||||| || ||  |||||||||||||||| ||||| |||  ||| ||||| ||||||||||
gtatatataagtactttccatcctactataatactgtacaggaaaagaacaagtaaattacttttgatttgttcaaaactaaaatttgaatttccatattggagaaaggtagtataataatccactatttgtgttatgttttatgcagAATATAAAATCAGACCTCAGTTTGTGGCAGCTAGGAACATTACCCCCCGGATTAATAGCATTCCATGGTCATGTCCACACTATTGATCCTTTCTGGCACA

upper sequence: Vv19s0014g05130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G36280.1 (Glycine max), 3'ss of exon 5
------------------gtatgcatttgtttctgtccacattaggcct---caaaaattgatttgggtcgtaagtactattatctgaaagtgacaataca-ttcatcattcatagttttggaaattgact--acattg----ttttga--------atgcagAACTTGAAATCAGACCTCAGTTTGTGGCAATTGGGCACATTACCACCAGGCCTAATAGCATTCCATGGCCATGTACACGTTATAGATCCCTTCTGGCACA
                     | ||||      |    | || | |       |||||   | |    |       | |||  |    | ||| ||||| | ||     | ||||     || | ||||    | ||||    || ||         ||| ||||  | ||||||||||| |||||||||||  | || |||||||| || ||  | |||||||| ||||| ||||| |||||||| ||||| |||||||| |
gtatttatatcttgattatcttccattctaccttaataatataaagaaaaagaaaaaaaaaagtcaaattactttaaatatatttctcatgtgtcaataaaattggctttccataagagcggtagttgatataatattgatatttctggttttgtttatgtagAATATCAAATCAGACCTAAGTTTGTGGCAGCTAGGGACATTACCTCCTGGATTGATAGCATTTCATGGTCATGTCCACGTTATTGATCCTTTCTGGCATA

upper sequence: Vv19s0014g05130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G34280.1 (Glycine max), 3'ss of exon 5
------------------gtatgcatttgtttctgtccacattaggcctcaaaaa-------ttgatttgggtcgtaagtactattatctgaaagtgacaatacattcatcat-----tcatagtt--ttggaaattgactacattgttttg---aatgcagAACTTGAAATCAGACCTCAGTTTGTGGCAATTGGGCACATTACCACCAGGCCTAATAGCATTCCATGGCCATGTACACGTTATAGATCCCTTCTGGCACA
                     | ||||      |    | || | | |  | |||       |  | ||   |   |  || |  ||  |     | | |||   ||   |||     | ||||||  |   | |||||      || ||||    ||| ||||  | ||||||||||| |||||||||||  | || |||||||| || ||  | |||||||| |||||  |||| |||||||| ||||| |||||||| |
gtatttatatcttgattatcttccattctaccttaataatataatgacaaagaaaaaataagtcaaattactttagatatatttctaatttgtcattaaaattggttttccataagagtgatagttgatataatattgatgtttctggtttgctttatgtagAATATCAAATCAGACCTGAGTTTGTGGCAGCTAGGGACATTACCTCCTGGATTGATAGCATTTCATGGTTATGTCCACGTTATTGATCCTTTCTGGCATA

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|110424737|gb|EC991107.1|EC991107
EST:     CTTGGAGGAAGACCAACATAAGCCGCACATACCATAGCTGGCTTCAAGAG                         AACTTGAAATCAGACCTCAGTTTGTGGCAATTGGGCACATTACCACCAGGC
genomic: CTTGGAGGAAGACCAACATAAGCCGCACATACCATAGCTGGCTTCAAGAGgtatgcattt ... ttgaatgcagAACTTGAAATCAGACCTCAGTTTGTGGCAATTGGGCACATTACCACCAGGC
EST: gi|122690411|gb|EC952332.1|EC952332
EST:     CTTGGAGGAAGACCAACATAAGCCGCACATACCATAGCTGGCTTCAAGAG                         AACTTGAAATCAGACCTCAGTTTGTGGCAATTGGGCACATTACCACCAGGC
genomic: CTTGGAGGAAGACCAACATAAGCCGCACATACCATAGCTGGCTTCAAGAGgtatgcattt ... ttgaatgcagAACTTGAAATCAGACCTCAGTTTGTGGCAATTGGGCACATTACCACCAGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaatacattcatcattcatagttttggaaattgactacattgttttgaatgcagAACTTGAAATCAGACCTCAGTTTGTGGCAATTGGGCACATTACCACCAGGCCTAATAGCATTCCATGGCCATGTACACGTTATAGATCCCTTCTGGCACA
                             aattgac  putative branch site (score: 3)
                                        ttgtttt  putative PPT
                  atagtttt  TA-rich tract