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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttctttctcataggcattggaataaatcattatccatgccttggacactacatctttattaagaatggatgctttgctttgttgcatgtctttgtgtagGATCAAGGAATTCAGTGAATGGGCACAGTGTCTCGTACTTGAGTTGGTCGCTAATTATGTACCTTCAGATAACAGTGAAATATTTGACATTATGAATCTC

Basic information

species Vitis vinifera
transcript Vv04s0008g03880.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G029077_T01 (Zea mays), 3'ss of exon 3
gtatgttctttctcataggcattggaataaatcattatccatgccttgga-cactacatctttattaag---aatggatgctttgctttgttgcatgtcttt--gtgtagGATCAAGGAATTCAGTGAATGGGCACAGTGTCTCGTACTTGAGTTGGTCGCTAATTATGTACCTTCAGATAACAGTGAAATATTTGACATTATGAATCTC
                           | | |  ||| ||  || ||||| || |   | || | |||    ||||     |||  |  |||   | | |||  ||| |||||||| || ||||||||||||||||||||| | || ||||||||||   | || |   | || || ||||| |  |||||||||||||| |||||||| 
--------------------------gtgagtt-ttaacctggctttggagcattttctgttaaataatcccaatgtgatttttcttgagttctctatttttacgtgcagGATCAAAGAGTTCAGTGAATGGGCACAGTGTATTGTTCTTGAGTTGGCATCAAAGTTCCTTCCATCTGATAATAACGAAATATTTGACATAATGAATCTG

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 3
gtatgttctttctcataggcattggaataaatcattatccatgccttggacactacatctttattaagaatggatgc--tttgctttg----ttgcatgtctttgtgtagGATCAAGGAATTCAGTGAATGGGCACAGTGTCTCGTACTTGAGTTGGTCGCTAATTATGTACCTTCAGATAACAGTGAAATATTTGACATTATGAATCTC
                           |   |  | | ||  || |||||  ||      |||   |      |||   ||| | |||     |  || | | |||| ||||||||||| |||||||||||||| |||||  | || ||||||||||   | || |   | || || ||||| | |||||||||||||||||||||| | 
--------------------------gtgggtt-tcaacctggctttggagccttttctgttaaataatgccaatgtgattttccttgagttctctatttttatgtgcagGATCAAGGAGTTCAGTGAATGGGCGCAGTGCATTGTTCTTGAGTTGGCATCAAAGTTCCTTCCATCTGATAATAATGAAATATTTGACATTATGAATTTG

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G08590.1 (Glycine max), 3'ss of exon 3
gtatgttctttctcataggcattggaataaatcattatccatgccttggacactacatctttattaagaatggatgctttgctttgttgcatgtctttgtgtagGATCAAGGAATTCAGTGAATGGGCACAGTGTCTCGTACTTGAGTTGGTCGCTAATTATGTACCTTCAGATAACAGTGAAATATTTGACATTATGAATCTC
 |   |  |     | ||  ||   || ||| ||      ||  |||| | |  | | |  | |||||||   ||   |   ||  ||   | |     || || || |||||||| ||||||||||| |||||||| || || || |||||  | || ||  | || ||||||||||||||||||||||| || |||||||||
-ttgctgataaaaaaaagagataaaaagaaagcacctgtaatatcttgcaaaa-ataccaattttaagaa--aatttatctgttctttcttttttcacctgcagCATTAAGGAATTTAGTGAATGGGCTCAGTGTCTTGTGCTGGAATTGGTGTCCAAGTACATTCCATCAGATAACAGTGAAATATTTGATATAATGAATCTC

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G08480.1 (Glycine max), 3'ss of exon 3
gtatgttctttctcataggcattggaataaatcattatccatgccttggacactacatctttattaagaatggatgctttgctttgttgcatgtctttgtgtagGATCAAGGAATTCAGTGAATGGGCACAGTGTCTCGTACTTGAGTTGGTCGCTAATTATGTACCTTCAGATAACAGTGAAATATTTGACATTATGAATCTC
    ||     |   |||  ||   || ||| ||      ||   ||| | | |  | |  | |||| ||    |   |   ||  ||   | |     || || || |||||||| ||||||||||| |||||||| || || || |||||  | || ||  | || ||||||||||||||||||||||| || |||||||| 
-ctagtagcaaccattagatataaaaagaaagcacctgtaatattttgcaaaat-taccaattttaataaaacttatctg--ttccttcttttttcacctgcagCATTAAGGAATTTAGTGAATGGGCTCAGTGTCTTGTGCTGGAATTGGTGTCCAAGTACATTCCATCAGATAACAGTGAAATATTTGATATAATGAATCTT

upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G11490.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgttctttctcataggcattggaataaatcattatccatgccttggacactacatctttattaagaatggatgctttgctttgttgcatgtctttgtgtagGATCAAGGAATTCAGTGAATGGGCACAGTGTCTCGTACTTGAGTTGGTCGCTAATTATGTACCTTCAGATAACAGTGAAATATTTGACATTATGAATCTC
               || | | |  |     || |  | ||    |    || || | |||  |   | |  | |  ||  | |||| |  ||| |   || |||||||||||||||| |||||||||||| |||||  ||||||||||||  |  || ||||| || |||||||  | ||| || ||||||||||||||||| 
--------------gtatgtacttaagc---tcctccttcaactgtctatcagtataacttgttgttgtagtggtatttaccattgtgg--tgtttcactgcagGATCAAGGAATTCAATGAATGGGCACAATGTCTTATACTTGAGTTGGCAGTAAAATATGTGCCGTCAGATAGTAATGATATTTTTGACATTATGAATCTG

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|110699549|gb|EE076646.1|EE076646
EST:     GAGAGAGAAGCTTTGCTTAGCAAGCCAGTGATATATTACTTTTTGAATCG                         GATCAAGGAATTCAGTGAATGGGCACAGTGTCTCGTACTTGAGTTGGTCGC
genomic: GAGAGAGAAGCTTTGCTTAGCAAGCCAGTGATATATTACTTTTTGAATCGgtatgttctt ... ctttgtgtagGATCAAGGAATTCAGTGAATGGGCACAGTGTCTCGTACTTGAGTTGGTCGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acactacatctttattaagaatggatgctttgctttgttgcatgtctttgtgtagGATCAAGGAATTCAGTGAATGGGCACAGTGTCTCGTACTTGAGTTGGTCGCTAATTATGTACCTTCAGATAACAGTGAAATATTTGACATTATGAATCTC
                                          tgtcttt  CT-rich tract
       atctttattaagaat  TA-rich tract