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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacttttatcttttagctttctttttgctaaaacctgtggatacctcctgtcaactctaattaaaatctctttcaaaattgtactcaagGCTTCATGGGGTCTGCAAAGAGAATCCCTTGGCACCTTTGATCAGCAGACTGGGGCTACCACTCTACCGTACTAGTGGCGACAACTCTGTGCTGTATGAC

Basic information

species Vitis vinifera
transcript Vv12s0028g01120.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0028g01120.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G000052_T01 (Zea mays), 3'ss of exon 4
gtaaacttt-tatcttttagctttctttttgctaaaacctgtggatacctcctgtca-actctaattaaaatctctttcaa-aattgtactca--agGCTTCATGGGGTCTGCAAAGAGAATCCCTTGGCACCTTTGATCAGCAGACTGGGGCTACCACTCTACCGTACTAGTGGCGACAACTCTGTGCTGTATGAC
|| |  |   |   |||||||||||    ||      ||      |   || ||    | | | || || || | |||||  | || || |||  |||||||||||||||||  |||| ||||||||||||||  | ||  | || || || || ||||| ||||| || ||||| ||  | |||||||||| ||| 
gtgagttccattctttttagctttcaccatgt----gcccaaaagtttatcttgagggaatgtcatgaacatttttttcatcatttttattcatcagGCTTCATGGGGTCTGTGAAGAAAATCCCTTGGCACCAATAATTGGAAGGCTTGGACTTCCACTGTACCGCACAAGTGGTGATGATTCTGTGCTGTTTGAT
















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|110697943|gb|EE075393.1|EE075393
EST:     GTTCATACTGATTACTCATTTGGTTTTCCTGTTGACCTGGGAGCATCATG                         GCTTCATGGGGTCTGCAAAGAGAATCCCTTGGCACCTTTGATCAGCAGACT
genomic: GTTCATACTGATTACTCATTTGGTTTTCCTGTTGACCTGGGAGCATCATGgtaaactttt ... tgtactcaagGCTTCATGGGGTCTGCAAAGAGAATCCCTTGGCACCTTTGATCAGCAGACT
EST: gi|110698188|gb|EE075460.1|EE075460
EST:     GTTCATACTGATTACTCATTTGGTTTTCCTGTTGACCTGGGAGCATCATG                         GCTTCATGGGGTCTGCAAAGAGAATCCCTTGGCACCTTTGATCAGCAGACT
genomic: GTTCATACTGATTACTCATTTGGTTTTCCTGTTGACCTGGGAGCATCATGgtaaactttt ... tgtactcaagGCTTCATGGGGTCTGCAAAGAGAATCCCTTGGCACCTTTGATCAGCAGACT
EST: gi|30303658|gb|CB980452.1|CB980452
EST:     GTTCATACTGATTACTCATTTGGTTTTCCTGTTGACCTGGGAGCATCATG                         GCTTCATGGGGTCTGCAAAGAGAATCCCTTGGCACCTTTGATCAGCAGACT
genomic: GTTCATACTGATTACTCATTTGGTTTTCCTGTTGACCTGGGAGCATCATGgtaaactttt ... tgtactcaagGCTTCATGGGGTCTGCAAAGAGAATCCCTTGGCACCTTTGATCAGCAGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtggatacctcctgtcaactctaattaaaatctctttcaaaattgtactcaagGCTTCATGGGGTCTGCAAAGAGAATCCCTTGGCACCTTTGATCAGCAGACTGGGGCTACCACTCTACCGTACTAGTGGCGACAACTCTGTGCTGTATGAC
                    ctctaat  putative branch site (score: 3)
                       taattaaaatctcttt  TA-rich tract