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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgccgcagttatttcatagttgatgttgagtttttcttattgatagctttggaaccttcatatggcatatcccactactttcatgagcatcaatgttaactatggtatgtctgcagTGTTTTATAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCGAGCATG

Basic information

species Vitis vinifera
transcript Vv08s0032g00800.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os11g36440.1 (Oryza sativa), 3'ss of exon 4
gtttgccgcagttatttcatagttgatgttgagtttttctta--ttgatagctt-tggaaccttcatatggcatatcccactactttc-atgagcatcaatgttaactatggtatgtctgcagTGTTTTATAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCGAGCATG
                          |||    | ||| | |  ||  |  ||| |  ||  ||  | | |   | |     | | ||  | | || || | |||   |   | ||| || |||| ||||| ||||||||||| ||||| ||||| ||||| ||||| ||||| ||||||
-------------------------gtgtgagatatttgtgagtttactcacttgttcaatttttctttcgtcgaccatgtgattctctgttaacaccagt-ttattcac--tttgtttgtagTGCTTTATTGTGAGCACAGTCAATGCCTTGCAAACACCCATGATTAATGCAAGCATG

upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 4
gtttgccgcagttatttcatagttgatgtt-gagtttttcttattga-tagctttggaaccttcatatggcatatcc-cactactttcat-gagcatcaatgttaactatggtatgtctgcagTGTTTTATAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCGAGCATG
                          |||  ||| |||     |||| |  ||||  || | |   ||    | ||   |||  |||  | ||  |   ||| | | ||   |   | || |||||||||| ||||||||||| ||||| ||||| ||||| ||||| ||||| ||||||
-------------------------gtgtgagagatttgtgagttgactcactttttaagcattccatcttctgtcaatactggtttagttgaagactcatgattatta--attgttttgtagTGTTTTATTGTGAGCACAGTCAATGCCTTGCAAACACCCATGATAAATGCAAGCATG

upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G106531_T01 (Zea mays), 3'ss of exon 4
gtttgccgcagttatttcatagttgatgttgagtttttcttattgatagctttggaaccttcatatggcatatcccactactttcatgagca-tcaatgttaactatggtatgtctgcagTGTTTTATAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCGAGCATG
    |    ||  ||||   ||||||        |||||   ||     ||||||| |||        ||      |||| |||  |||  | |  ||| | | ||   ||| | || |||||||||| ||||||||||| ||||| ||||| ||||| ||||| ||||| ||||||
----gtatgagagatttgtgagttgactc---acttttcaagttttcctctttggagcctgtgatcttcagtcaatactagtttagtgaaaagttcatgattatta-attatctttgtagTGTTTTATTGTGAGCACAGTCAATGCCTTGCAAACACCCATGATAAATGCAAGCATG

upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G34060.1 (Glycine max), 3'ss of exon 4
gtttgccgcagttatttcatagttgatgttgagtttttcttattgatagctttggaaccttcatatggcatatcccactactttcatgagcatcaatgttaactatggtatgtctgcagTGTTTTATAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCGAGCATG
            | ||||  |  |  | |  |||         |   | |  ||  |  | || || |  |        | ||    | |||| | || |||     || |   ||||||||||||||||||||||||| |||||||||||||||||||||||||||||   ||||
------------tttttctaaactattttcaagtga-----gatagcaccactg--atttacacattgtttgattattcaattattggtgcatgattggtaaaatatgtgttattgcagTGTTTTATAGTGAGCACAGTCAATGCTTTGCAGACACCAATGATCAATGCTGCCATG

upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 4
gtttgccgcagttatttcatagttgatgttgagtttttcttattgatagctttggaaccttcatatggcatatcccactactttcatgagcatcaatgttaactatggtatgtctgcagTGTTTTATAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCGAGCATG
            | | | | |  |  | |  |||         |   | |  ||  |  | || || |  ||       | ||    | |||| | || |||     || |   ||||||||||||||||||||||||| |||||||||||||||||||||||||||||   ||||
------------tttctaaaaactattttcaagtga-----gatagcaccactg--atttacacattgattaattattcagttattggtgcatgattggtaaaatatgtgttattgcagTGTTTTATAGTGAGCACAGTCAATGCTTTGCAGACACCAATGATCAATGCTGCCATG

upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 4
gtttgccgcagttatttcatagttgatgttgagtttttctta--ttgatagctttggaaccttcatatggcatatcccactactttcatgagcatcaatgttaactatggtatgtctgcagTGTTTTATAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCGAGCATG
                | | |    |   | | |||||||||  |||     |||    |  ||| ||   ||||||      |  ||||   ||||   || |      | || ||||||||||| || ||||||||||| |||||||||||||| |||||||||||||| || |||
---------------gtgagaaaaaaacattattttttcttaacttgcacaatttttttcactcaaatt-tatatccagaatatagcatggatatcacccttcat----atttgcctgcagTGTTTCATTGTGAGCACAGTCAATGCTTTGCAGACGCCAATGATCAATGCAAGTATG

upper sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ21638 (Selaginella moellendorffii), 3'ss of exon 4
gtttgccgcagttatttcatagttgatgttgagtttttcttattgatagctttggaaccttcatatggcatatcccactactttcatgagcatcaatgttaactatggtatgtctgcagTGTTTTATAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCGAGCATG
                                            |  |||||| |||| ||  |                 |||    ||  ||    |||||| || | |   |  |||| ||  | || || || ||  | || |||   ||||||||||||||||||||||||
--------------------------------------------gtaagctttagaactttttt-----------------tttttccagtttcggc-ttaactgtgattttgttctagTGCTTCCTCGTCAGTACCGTCGACGCGTTGTGTACACCAATGATCAATGCGAGCATG

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|161714576|gb|FC063560.1|FC063560
EST:     CCCGCAAGTACATAAAGGATCCCCAGCTGTTATCTTTCATAGATGCTGAG                         TGTTTTATAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCG
genomic: CCCGCAAGTACATAAAGGATCCCCAGCTGTTATCTTTCATAGATGCTGAGgtttgccgca ... atgtctgcagTGTTTTATAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggcatatcccactactttcatgagcatcaatgttaactatggtatgtctgcagTGTTTTATAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCGAGCATG
                                tgttaac  putative branch site (score: 2)
                              aatgttaa  TA-rich tract