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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttcttgtgctgtttttatcatttagcttttccagcaattttaccttcccatttgttttcaaatgggaaacatatacttccatgctaatagatatctattttttttgcagACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATCACACGTTTTCAG

Basic information

species Vitis vinifera
transcript Vv13s0019g04660.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g04660.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA10G35280.1 (Glycine max), 3'ss of exon 10
gtaagttttcttgtgctgtttttatcatttagcttttccagcaattttaccttcccatttgttttcaaatgggaaacatatacttccatgctaatagatatctattttttttgcagACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATCACACGTTTTCAG
                                   |||||   | |||| ||   | ||  |  | ||||     |||||  | |   | |||||  | | | |  ||  |  |||||||| ||||| || ||||||||||||||||| |||||| |||| ||| | |||||  | |||
------------------------------gtaagttccattcagtttatctgttc-ttgctcctaaaattactgacataagcattt-tactaattaaaaccaaccttgatgacagACTTTGATACTACCCTGTGCTTGTTTCCTAAGAATCTTGCGGGGCAAAGTGACACGAATACAG

upper sequence: Vv13s0019g04660.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA10G35280.2 (Glycine max), 3'ss of exon 10
gtaagttttcttgtgctgtttttatcatttagcttttccagcaattttaccttcccatttgttttcaaatgggaaacatatacttccatgctaatagatatctattttttttgcagACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATCACACGTTTTCAG---------------------
                                   |||||   | |||| ||   | ||  |  | ||||     |||||  | |   | |||||  | | | |  ||  |  |||||||| ||||| || ||||||||||||||||| |||||| |||| ||| | |||||  | |||                     
------------------------------gtaagttccattcagtttatctgttc-ttgctcctaaaattactgacataagcattt-tactaattaaaaccaaccttgatgacagACTTTGATACTACCCTGTGCTTGTTTCCTAAGAATCTTGCGGGGCAAAGTGACACGAATACAGGTATGATGATTTCATACTTAA

upper sequence: Vv13s0019g04660.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA20G32260.1 (Glycine max), 3'ss of exon 11
gtaagttttcttgtgctgtttttatcatttagcttttccagcaattttaccttcccatttgttttcaaatgggaaacatatacttccatgctaatagatatctattttttttgcagACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATCACACGTTTTCAG
                        | | ||  | ||||     || ||| ||   | ||  |  |  | |     || |   | |   | |||||  | | | |  ||  |  |||||||| ||||| || ||||||||||||||||| |||||| |||| ||| | |||||    |||
-----------------------gtaagtt--cctttcagcttatcttatctgttc-ttgctcctagagttactgaccttagcattt-tactaattaaaaccaaccttgatgacagACTTTGATACTACCCTGTGCTTGTTTCCTAAGAATCTTGCGGGGCAAAGTGACACGAACACAG

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|34319479|gb|CF372233.1|CF372233
EST:     GTTTGGTGATGGCATTGATTGGATCTTTGCTCACAATGCTTGTA                         ACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATC
genomic: GTTTGGTGATGGCATTGATTGGATCTTTGCTCACAATGCTTGTAgtaagttttc ... ttttttgcagACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATC
EST: gi|110424687|gb|EC991055.1|EC991055
EST:     GTTTGGTGATGGCATTGATTGGATCTTTGCTCACAATGCTTGTA                         ACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATC
genomic: GTTTGGTGATGGCATTGATTGGATCTTTGCTCACAATGCTTGTAgtaagttttc ... ttttttgcagACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATC
EST: gi|110699502|gb|EE076557.1|EE076557
EST:     GTTTGGTGATGGCATTGATTGGATCTTTGCTCACAATGCTTGTA                         ACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATC
genomic: GTTTGGTGATGGCATTGATTGGATCTTTGCTCACAATGCTTGTAgtaagttttc ... ttttttgcagACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATC
EST: gi|110382983|gb|EC947317.1|EC947317
EST:     TTGGTGATGGCATTGATTGGATCTTTGCTCACAATGCTTGTA                         ACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATC
genomic: TTGGTGATGGCATTGATTGGATCTTTGCTCACAATGCTTGTAgtaagttttc ... ttttttgcagACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcaaatgggaaacatatacttccatgctaatagatatctattttttttgcagACTTTAATACTTCCATGTGCTTGTTTCCTAAGCATCTTGAGGGGAAAAATCACACGTTTTCAG
                           tgctaat  putative branch site (score: 2)
                                     tatctatttttttt  putative PPT
                              taatagatatctattt  TA-rich tract