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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtatttttgtgaattgtgaagatgtccaggaactcatggatttgttgtcattaaccatcgccttcctttaaccagGAAATCATGTACAAGAAACTTCTGTATGCGATCAGCGAGGGACAGGGGTCTTTTGATTTGTCATGA

Basic information

species Vitis vinifera
transcript Vv03s0038g02340.t01
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA12G03640.1 (Glycine max), 3'ss of exon 16
gtatggtatttttgtgaattgtgaagatgtccaggaactcatggatttgttgtcattaaccatcgccttccttt---aaccagGAAATCATGTACAAGAAACTTCTGTATGCGATCAGCGAGGGACAGGGGTCTTTTGATTTGTCATGA----------------------------------
|||    | |     | |||||   | | |      |  ||||     ||     || | | | |  |||| ||   || |||||||| ||||||||||| || || ||||| ||||| || || ||||| || |||||||| ||||||                                  
gtagaacactgcaaagcattgttg-gttatatgatcatgcatgtcaaagtgtcttttgatctttgatttccattttaaaacagGAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCCTTTGATTTATCATGAGTTCTGGAACTACCCAACCCGGCCCTGTATGTTA

upper sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA06G00600.2 (Glycine max), 3'ss of exon 16
----------------gtatggtatttttgtgaattgtgaagatgtccaggaactca----tggatttgttgtcattaaccatcgccttcctttaaccagGAAATCATGTACAAGAAACTTCTGTATGCGATCAGCGAGGGACAGGGGTCTTTTGATTTGTCATGA----------------------------------
                  ||  | | |     | |  |    |||| ||  |         || || | |||  ||||| |   |      ||| | |||||||| ||||||||||| || || ||||| |||| |||||| | ||| || |||||||| ||||||                                  
actagacaaaactaaacaattatttctccaaaattcatacgtatgttcattactctgatattgcatcttttggtattaatctatgttcattttttaacagGAAATTATGTACAAGAAGCTACTCTATGCAATCAACGAGGGCCGGGGATCCTTTGATTTATCATGAGTTTCTGAAACTAACCAACCTTACCCTGCATGTT

upper sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA04G00530.1 (Glycine max), 3'ss of exon 16
-------------gtatggtatttttgtgaattgtgaagatgtccaggaactca----tggatttgttgtcattaacc-atcgccttc--ctttaaccagGAAATCATGTACAAGAAACTTCTGTATGCGATCAGCGAGGGACAGGGGTCTTTTGATTTGTCATGA----------------------------------
             | ||  | | |     |    |    |||| ||  |         || || | |||  ||||| | ||    |||   ||| | |||||||| |||||||||||  | || ||||| ||||| ||||| ||||| || |||||||| ||||||                                  
tggcaaaactaaggaattatttctcaaaaatacatacgtatgttcattactctgatattgcatcttttggtattaatctatgatgttcaattttcaacagGAAATTATGTACAAGAAGTTGCTCTATGCAATCAGTGAGGGCCAGGGATCCTTTGATTTATCATGAGTTTCTGAAACTAACCAACCTTACCCTGCATGTT

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|71879155|gb|DT028210.1|DT028210
EST:     GTGTCATGACATGTGCTAATTACCTCAAGCTTCCTCCGTACTCTACCAAG                         GAAATCATGTACAAGAAACTTCTGTATGCGATCAGCGAGGGACAGGGGTCT
genomic: GTGTCATGACATGTGCTAATTACCTCAAGCTTCCTCCGTACTCTACCAAGgtatggtatt ... ctttaaccagGAAATCATGTACAAGAAACTTCTGTATGCGATCAGCGAGGGACAGGGGTCT
EST: gi|37185190|gb|CF604543.1|CF604543
EST:     GTGTCATGACATGTGCTAATTACCTCAAGCTTCCTCCGTACTCTACCAAG                         GAAATCATGTACAAGAAACTTCTGTATGCGATC
genomic: GTGTCATGACATGTGCTAATTACCTCAAGCTTCCTCCGTACTCTACCAAGgtatggtatt ... ctttaaccagGAAATCATGTACAAGAAACTTCTGTATGCGATC
EST: gi|30126932|gb|CB912271.1|CB912271
EST:     GTGTCATGACATGTGCTAATTACCTCAAGCTTCCTCCGTACTCTACCAAG                         GAAATCATGTACAAGAAACTTCTGTATGCGATCAGCGAGGGAC
genomic: GTGTCATGACATGTGCTAATTACCTCAAGCTTCCTCCGTACTCTACCAAGgtatggtatt ... ctttaaccagGAAATCATGTACAAGAAACTTCTGTATGCGATCAGCGAGGGAC
EST: gi|110684682|gb|EE062237.1|EE062237
EST:     GTGTCATGACATGTGCTAATTACCTCAAGCTTCCTCCGTACTCTACCAAG                         GAAATCATGTACAAGAAACTTCTGTATGCGATCAACGAGGGGCAGGGGTCN
genomic: GTGTCATGACATGTGCTAATTACCTCAAGCTTCCTCCGTACTCTACCAAGgtatggtatt ... ctttaaccagGAAATCATGTACAAGAAACTTCTGTATGCGATCAGCGAGGGACAGGGGTC-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgtccaggaactcatggatttgttgtcattaaccatcgccttcctttaaccagGAAATCATGTACAAGAAACTTCTGTATGCGATCAGCGAGGGACAGGGGTCTTTTGATTTGTCATGA
                            cattaac  putative branch site (score: 2)
                                  ccatcgccttccttt  CT-rich tract
                   atttgtt  TA-rich tract