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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtacatatccatctaatcagtggttctgacatgatgagaatctgttgtttttatttgatgtctgtaaccctctttcatttatattattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACTTGGTTTGGATGATCCATCCAAAATCAGACTTACATCTCACAACTGCTAT

Basic information

species Vitis vinifera
transcript Vv08s0032g00600.t01
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 3'ss of exon 22
gtaagtacatatccatctaatcagtggttctgacatgatgag--aatctgttgtttttatttgatgtctgtaaccctctttcatttatattattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACTTGGTTTGGATGATCCATCCAAAATCAGACTTACATCTCACAACTGCTAT
|| ||  | |    |||    |  || |||| |  | |  |   || || || ||||      | |  |  |   |  | |   ||   ||     ||||| ||||| || | ||||||||||||||| || ||||| || ||   |||||| |||||||||||||| |||||  | ||||||||||||||||| |||
gtgagggcttgcaaatca---ctatgtttcttatttaaaaaattaaactattattttgcaaaaaagcttacatatcaatatttcttgctttcacttagGTCGAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACGCCAACTTGGCTTGGATGATCCATCAAAAATTCGCCTTACATCTCACAACTGTTAT

upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 22
-----------------------gtaagtacatatccatctaatcagtggttctgacatgatgagaatctgttgtttttatttgatgtctgtaaccctctttcatttatattattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACTTGGTTTGGATGATCCATCCAAAATCAGACTTACATCTCACAACTGCTAT
                        |||     | | ||| | | |   |||| |   | | ||  | | ||  ||||| | |  |  |   ||    | | |  |||  | |     ||||||||||| || | ||||||||||||||| || ||||| || | || |||||| |||||||||||||| || ||  | |||||||||||||| || |||
gtaagggattgcaaatgaaactgataaactggtttacatttgaacttcggtttt---acgttggaactttg--gttttgaatcaacatacatatgtgtttcttgttttcactt----agGTCAAAGCTTCATACTTATGATGATGTTGTTGAGAGAGTTGCACATAAACTTGGGTTGGATGATCCATCAAAGATTCGGCTTACATCTCACAATTGTTAT

upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: AT3G11910.1 (Arabidopsis thaliana), 3'ss of exon 22
gtaagtacatatccatctaatcagtggttctgacatgatgagaatctgttgtttttatttgatgtctgtaaccctctttcatttatattattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACTTGGTTTGGATGATCCATCCAAAATCAGACTTACATCTCACAACTGCTAT
                    | |||   | |   |||   |   | ||||   || |||| | || |   |     |     || || | |   ||||||||||| |||| |||||||||||| |||||||| ||||||   |  |||||  | || |||||||| ||| | || |||||||||||||| ||||| 
-------------------gtaagtaccttt---atggacaacctttgtttcgttgatttca-gtataggaattcataatgcttctactttc--agGTCAAAGCTGCACACTTATGATGATGTAGTGGAAAGGGTGGCTGAGAAGCTTGGCCTTGACGATCCATCAAAACTTAGGCTTACATCTCACAATTGCTAC

upper sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: AT5G06600.2 (Arabidopsis thaliana), 3'ss of exon 22
gtaagtacatatccatctaatcagtggttctgacatgatgagaatctgttgtttttatttgatgtctgtaaccctctttcatttatattattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACTTGGTTTGGATGATCCATCCAAAATCAGACTTACATCTCACAACTGCTAT
                    | |||   ||||    || ||       ||||||  |  |||| || || |   || |  || | |  | |   ||||| ||||  |||| |||||| ||||||||||| | |||||||   |  |||||| | || |||||||||||| | || |||||||||||||| ||||||
-------------------gtaagtacctctg----gacgaat-----ttgtttcaagctgatttcagtgatt-tcataaatcttttatctcttagGTCGAAGCAGCACACTTATGACGATGTTGTGGAGAAAGTGGCTGAGAAGCTTGGTCTTGACGATCCATCCAAACTTAGGCTTACATCTCACAATTGCTAT

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|71859919|gb|DT008974.1|DT008974
EST:     CATTTTCGAGCTTTGGAGAGACCTAAGGAGGATGATTTCTGTCTAGAGTT                         GTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTC
genomic: CATTTTCGAGCTTTGGAGAGACCTAAGGAGGATGATTTCTGTCTAGAGTTgtaagtacat ... attattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTC
EST: gi|56409497|gb|CX017749.1|CX017749
EST:     CATTTTCGAGCTTTGGAGAGACCTAAGGAGGATGATTTCTGTCTAGAGTT                         GTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACT
genomic: CATTTTCGAGCTTTGGAGAGACCTAAGGAGGATGATTTCTGTCTAGAGTTgtaagtacat ... attattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACT
EST: gi|351055551|gb|FQ442347.1|FQ442347
EST:     CGAGCTTTGGAGAGACCTAAGGAGGATGATTTCTGTCTAGAGTT                         GTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACT
genomic: CGAGCTTTGGAGAGACCTAAGGAGGATGATTTCTGTCTAGAGTTgtaagtacat ... attattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACT
EST: gi|110719328|gb|EE097177.1|EE097177
EST:     CATTTTCGAGCTTTGGAGAGACCTAAGGAGGATGATTTCTGTCTAGAGTT                         GTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACT
genomic: CATTTTCGAGCTTTGGAGAGACCTAAGGAGGATGATTTCTGTCTAGAGTTgtaagtacat ... attattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACT
EST: gi|34542378|gb|CF510610.1|CF510610
EST:     CATTTTCGAGCTTTGGAGAGACCTAAGGAGGATGATTTCTGTCTAGAGTT                         GTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACT
genomic: CATTTTCGAGCTTTGGAGAGACCTAAGGAGGATGATTTCTGTCTAGAGTTgtaagtacat ... attattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACT
EST: gi|56409712|gb|CX017964.1|CX017964
EST:     CATTTTCGAGCTTTGGAGAGACCTAAGGAGGATGATTTCTGTCTAGAGTT                         GTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACT
genomic: CATTTTCGAGCTTTGGAGAGACCTAAGGAGGATGATTTCTGTCTAGAGTTgtaagtacat ... attattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatctgttgtttttatttgatgtctgtaaccctctttcatttatattattcaagGTCAAAGCTACACAATTATGATGATGTTGTGGAAAGAGTGGCTCGTAGACTTGGTTTGGATGATCCATCCAAAATCAGACTTACATCTCACAACTGCTAT
                        ctgtaac  putative branch site (score: 3)
                                 tctttcatttatatta  TA-rich tract