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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattacttcctcctgattgctggattgctgtgaattttgtctcatatgttatttggttctttttataattaaatcatgtatagtttattgtttttcatatttgattgaagGGAATCAGTTCAATTGTTGGAGCCATTGCCCTTGACATGGGGGTTTTAACAACTCCACAACTACATTGGATGGTTCGGGCTAGGAATAAGGGCATGAAAG

Basic information

species Vitis vinifera
transcript Vv02s0012g00620.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0012g00620.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G10810.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------------gtattacttcctcctgattgctggattgctgtgaattttgtctcat----atgttatttggttctttttataattaaatcatgtatagtttattgtttttcatatttgattgaagGGAATCAGTTCAATTGTTGGAGCCATTGCCCTTGACATGGGGGTTTTAACAACTCCACAACTACATTGGATGGTTCGGGCTAGGAATAAGGGCATGAAAG
                                                                                |   ||| |  ||| | |  |  |    || ||||  | | | ||    |  ||      |  ||| | | ||| | |    | || ||   | |  || | ||   | |||||||  ||| |||||||||||||||  ||||    || |||||  | || |||||||||||| | |||||||||||||| ||||| |||||||| |||||||
gtatttggagtatttgcgaccgcaattgtggttgcatgagctgcatttgtctgctattccctcaatgtcaataaactcgatgaaactacaacctcaat-ttaaaaccttgagaatcatatatgattgggaaattccaccatcttttattttattgagtggattttaattacatataattga-atgaaaatgaagGGCGTCACTTCAATTGTTGGAGCTGTTGCGACGGATATGGGAATCTTGACAACTCCACAATTGCATTGGATGGTTCGTGCTAGAAATAAGGGTATGAAAG

upper sequence: Vv02s0012g00620.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G22760.1 (Glycine max), 3'ss of exon 2
---gtattacttcctcctgattgctggattgctgtgaattttgtctcatatgttatttggttctttttataattaaatcatgtatagtttattgtttttcatatttgattgaagGGAATCAGTTCAATTGTTGGAGCCATTGCCCTTGACATGGGGGTTTTAACAACTCCACAACTACATTGGATGGTTCGGGCTAGGAATAAGGGCATGAAAG
      |||   |||   || |  |  ||   || ||| ||  |  ||| | ||||||  ||   |  ||  || ||| |  |||| ||   ||             | |||||||  ||| |||||||||||||||  ||||    || |||||  | || |||||||||||| | |||||||||||||| ||||| |||||||| |||||||
cacaatttaaaaccttgagaatcataaatgattgggaaattc-taccatcttttattttattgagtggat--tttaattacatataattggatga-----------aaatgaagGGCGTCACTTCAATTGTTGGAGCTGTTGCGACAGATATGGGAATCTTGACAACTCCACAATTGCATTGGATGGTTCGTGCTAGAAATAAGGGTATGAAAG

upper sequence: Vv02s0012g00620.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G40950.1 (Glycine max), 3'ss of exon 3
---gtattacttcctcctgattgctggattgctgtgaattttgtctcatatgttatttggttctttttataattaaatcatgtatagtttattgtttttcatatttgattgaagGGAATCAGTTCAATTGTTGGAGCCATTGCCCTTGACATGGGGGTTTTAACAACTCCACAACTACATTGGATGGTTCGGGCTAGGAATAAGGGCATGAAAG
      |||   |||   || |  |  ||   || ||| ||  |  ||| | ||||||  ||   |  ||  || ||| |  |||| ||   ||             | |||||||  ||| |||||||||||||||  ||||    || |||||  | || |||||||||||| | |||||||||||||| ||||| |||||||| |||||||
cacaatttaaaaccttgagaatcataaatgattgggaaattc-taccatcttttattttattgagtggat--tttaattacatataattggatga-----------aaatgaagGGGGTCACTTCAATTGTTGGAGCTGTTGCGACGGATATGGGAATCTTGACAACTCCACAATTGCATTGGATGGTTCGTGCTAGAAATAAGGGTATGAAAG

upper sequence: Vv02s0012g00620.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G10810.2 (Glycine max), 3'ss of exon 2
---gtattacttcctcctgattgctggattgctgtgaattttgtctcatatgttatttggttctttttataattaaatcatgtatagtttattgtttttcatatttgattgaagGGAATCAGTTCAATTGTTGGAGCCATTGCCCTTGACATGGGGGTTTTAACAACTCCACAACTACATTGGATGGTTCGGGCTAGGAATAAGGGCATGAAAG
      |||   |||   || |  |  ||   || ||| ||   | ||| | ||||||  ||   |  ||  || ||| |  |||| || | ||             | |||||||  ||| |||||||||||||||  ||||    || |||||  | || |||||||||||| | |||||||||||||| ||||| |||||||| |||||||
ctcaatttaaaaccttgagaatcatatatgattgggaaattccac-catcttttattttattgagtggat--tttaattacatataattgaatga-----------aaatgaagGGCGTCACTTCAATTGTTGGAGCTGTTGCGACGGATATGGGAATCTTGACAACTCCACAATTGCATTGGATGGTTCGTGCTAGAAATAAGGGTATGAAAG

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|352776586|gb|FQ474888.1|FQ474888
EST:     GGAGGGACACAAGGCCCAGTGGCGGATCTCTCCTTGAAGCTGCAAAACAA                         GGAATCAGTTCAATTGTTGGAGCCATTGCCCTTGACATGGGGGTTTTAACA
genomic: GGAGGGACACAAGGCCCAGTGGCGGATCTCTCCTTGAAGCTGCAAAACAAgtattacttc ... ttgattgaagGGAATCAGTTCAATTGTTGGAGCCATTGCCCTTGACATGGGGGTTTTAACA
EST: gi|352782014|gb|FQ469312.1|FQ469312
EST:     GGAGGGACACAAGGCCCAGTGGCGGATCTCTCCTTGAAGCTGCAAAACAA                         GGAATCAGTTCAATTGTTGGAGCCATTGCCCTTGACATGGGGGTTTTAACA
genomic: GGAGGGACACAAGGCCCAGTGGCGGATCTCTCCTTGAAGCTGCAAAACAAgtattacttc ... ttgattgaagGGAATCAGTTCAATTGTTGGAGCCATTGCCCTTGACATGGGGGTTTTAACA
EST: gi|352777351|gb|FQ473985.1|FQ473985
EST:     GGAGGGACACAAGGCCCAGTGGCGGATCTCTCCTTGAAGCTGCAAAACAA                         GGAATCAGTTCAATTGTTGGAGCCATTGCCCTTGACATGGGGGTTTTAACA
genomic: GGAGGGACACAAGGCCCAGTGGCGGATCTCTCCTTGAAGCTGCAAAACAAgtattacttc ... ttgattgaagGGAATCAGTTCAATTGTTGGAGCCATTGCCCTTGACATGGGGGTTTTAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttctttttataattaaatcatgtatagtttattgtttttcatatttgattgaagGGAATCAGTTCAATTGTTGGAGCCATTGCCCTTGACATGGGGGTTTTAACAACTCCACAACTACATTGGATGGTTCGGGCTAGGAATAAGGGCATGAAAG
                                           atttgat  putative branch site (score: 5)
     ttttataattaaatca  TA-rich tract