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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttttctttaactgattctagtgtatatatgatacaacttttaggacttctttattaagtcccttggtgctttctgttttatttttcagtgcatgtgccagaattaatttagacctacattatgccaattattttgttcttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG

Basic information

species Vitis vinifera
transcript Vv14s0060g02220.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g02220.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G42150.1 (Glycine max), 3'ss of exon 6
gtatttttctttaactgattctagtgtatatatgatacaacttttaggacttctttattaagtcccttggtgctttctgttttatttttcagtgcatgtgccagaattaatttagacctacattatgccaattattttgttcttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG
                                                                   |  || | | |   || ||| |   |  |||||   ||    ||  |   ||     |    | || ||||   |   |||||||| || |||||||| ||||| || ||||||||||||||||||||||||||||||||||| ||| ||||  | ||||||
------------------------------------------------------------------gtaatgttatgtagattttttatgcattgatgtgaatgacacgatgcaaggctcttaaacattattttttttaacccattttcagGTTGGTGCCCATTATTTTGAGGAAGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG

upper sequence: Vv14s0060g02220.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G39530.1 (Glycine max), 3'ss of exon 6
gtatttttctttaactgattctagtgtatatatgatacaacttttaggacttctttattaagtcccttggtgctttctgttttatttttcagtgcatgtgccagaattaatttagacctacattatgccaattattttgttcttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG
                                                                   |  |  | | |   || |  | || || || ||   ||    ||  |   ||     |    | |  ||||   |   |||||||| || |||||||| ||||| || ||||||||||||||||||||||||||||||||||| ||| ||||  | ||||||
------------------------------------------------------------------gtaatattatgtagattttaatgcattg-atttgaatgatacgatgcaaggctcttaaacatgattatttttaacccattttcagGTCGGTGCCCATTATTTTGAGGAAGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG

upper sequence: Vv14s0060g02220.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G05520.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatttttctttaactgattctagtgtatatatgatacaacttttaggacttctttattaagtcccttggtgctttctgttttatttttcagtgcatgtgccagaattaatttagacctacattatgccaattattttgttcttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG
                                      ||| ||   |||||  ||      || ||    | |  ||||    || |||      | |||||  ||| || |  |   |  || |   || ||| |   | |   ||||||| || || ||||| |||||||||||||||||| | |||||||||||| | || | | | ||||||||||||||||||
------------------------------------gtaacattcgcgacttgctt------tctctgtaagttgactgtgacgttattc------tatgcca--attgatgttcagtgagcttgttttaagtatatcactttctcttcagGTAGGAGCTCATTATTTTGAAGAGGGAAATGTGGAATTAGATGCAAAAAAAGATTTCCAAGATTCAACAATATTTCAG

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|77581025|gb|DV219440.1|DV219440
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
EST: gi|30303522|gb|CB980316.1|CB980316
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
EST: gi|110384527|gb|EC948970.1|EC948970
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
EST: gi|77585681|gb|DV221932.1|DV221932
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
EST: gi|30329044|gb|CD012306.1|CD012306
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
EST: gi|30133940|gb|CB919279.1|CB919279
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
EST: gi|30303590|gb|CB980384.1|CB980384
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
EST: gi|110386543|gb|EC951144.1|EC951144
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
EST: gi|110713063|gb|EE088666.1|EE088666
EST:     TGAATTTAAGGATGACATGCAAATGCTGGAAGTA-GAGGCAGACTGCNAG                         -TGGGGGCCCATTACT
genomic: TGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGC-AGgtatttttct ... cttctttcagGTGGGGGCCCATTACT
EST: gi|71868070|gb|DT017125.1|DT017125
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
EST: gi|56408576|gb|CX016828.1|CX016828
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
EST: gi|77579507|gb|DV218595.1|DV218595
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
EST: gi|56408380|gb|CX016632.1|CX016632
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
EST: gi|27582331|gb|CB005026.1|CB005026
EST:     TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAG                         GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT
genomic: TTGAATTTAAGGATGACATGCAAATGCTGGAAGTAAGAGGCAGACTGCAGgtatttttct ... cttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgccagaattaatttagacctacattatgccaattattttgttcttctttcagGTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG
        aattaat  putative branch site (score: 3)
                                   ttattttgttcttctt  putative PPT
                                 aattattttgttctt  TA-rich tract