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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAACAGATCATGAAGTTGCATTTCCAATTCGAACAATATATTTTGAGAGCCCTTCTGCTTTCCCTGAAATCAATTCATTTACTTATGAAACAGCCACTACgtgagaaaagtcccctttcctttttcagatattattttttgatctgcagatttttctttaacgcaagatgataaataagtcttggcttctaggcctgccatatctccaggcatctggttatgatttgacttattccttgttgagcag

Basic information

species Vitis vinifera
transcript Vv08s0007g04980.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os01g15490.2 (Oryza sativa), 5'ss of exon 3
TAACAGATCATGAAGTTGCATT-TCCAATTCGAACAATATATTTTGAGAGCCCTTCTGCTTTCCCTGAAATCAATTCATTTACTTATGAAACAGCCACTACgtgagaaaagtcccctttcctttttcagatattattttttgatctgcagatttttctttaacgcaagatgataaataagtcttggcttctaggcctgccatatctccaggcatctggttatgatttgacttattccttgttgagcag
 ||  ||  |  |      | | |||  | || || || |||||||||||||||| |||||||||||||||||| ||||| ||||||||||| | | | |||| |||||   |     | | || ||     ||||||  | | ||  |||  ||           | ||||  ||||    ||| | ||   |    ||| |                                             
-AAATGAATACTATCCAAAACTGTCCTGTGCGCACCATCTATTTTGAGAGCCCTTGTGCTTTCCCTGAAATCAACTCATTCACTTATGAAACTGTCTCAACgtaagaaatcactaagattcgttgtctttgtttatttgctaaccttgagaagtt-----------aaatga--aatattctttgtcctcc--gttctccacag--------------------------------------------

upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM2G381933_T03 (Zea mays), 5'ss of exon 3
TAACAGATCATGAAGTTGCATTTCCAATTCGAACAATATATTTTGAGAGCCCTTCTGCTTTCCCTGAAATCAATTCATTTACTTATGAAACAGCCACTACgtgagaaaagtcccctttcctttttcagatattattttttgatctgcagatttttctttaacgcaagatgataaataagtcttggcttctaggcctgccatatctccaggcatctggttatgatttgacttattccttgttgagcag
 |||||||  ||        | |||| | || || || ||||| || ||||||| |||||||||||||||||||||||| |||||||| |  | | | |||| |||   ||   ||    | | ||  |  |||   || | |||         | ||||| | | |           |   ||||     | |   |   |||  |                                        
AAACAGATGCTGTTAAAAACTGTCCACTGCGTACTATCTATTTCGAAAGCCCTTGTGCTTTCCCTGAAATCAATTCATTCACTTATGAGATTGTCTCAACgtaaga---gttgtctaagatgtgtctaactttacccttag-tctat---ccgctatttaaggaagggcaggcctggtgcggtggcgagctgtctcactgaatcatc----------------------------------------

upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA19G36860.1 (Glycine max), 5'ss of exon 4
TAACAGATCATGAAGTTGCATTTCCAATTCGAACAATATATTTTGAGAGCCCTTCTGCTTTCCCTGAAATCAATTCATTTACTTATGAAACAGCCACTACgtgagaaaag-----tcccctttcctttttcagatattattttttgatc--tgcagatttttctttaacgcaagatgata------------aataagtcttggcttctaggcctgccatatctccaggcat--------ctggttatgatttgacttat--tccttgttgagcag
 ||  |   ||  |   |  ||||||||||||||||||||||||||||| |||| ||| ||||| ||||||||||||||||| ||||| || ||  | |||||||  |||     |||  | | |||||| |  | |||||| ||  ||  ||||| ||     |||  |  || |||||            |||  ||   |   | |     |   | |  |  |||| |         |     ||     ||| ||  |  || ||||| ||
CAAATGGGGATCTAAAAGATTTTCCAATTCGAACAATATATTTTGAGAGTCCTTGTGCATTCCCAGAAATCAATTCATTTACCTATGATACTGCTGCCACgtgagtgaagcttcttcctttctactttttaattttttatttatttgtcattgcagtttagatattatggagaggtgatattttcctcccttaatttgtaccgttgtttgtaattcttaaacttggaggcttgtcctcctttaaaggtggagcaactaatgatttttcttgagtag

upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA03G34140.1 (Glycine max), 5'ss of exon 3
TAACAGATCATGAAGTTGCATTTCCAATTCGAACAATATATTTTGAGAGCCCTTCTGCTTTCCCTGAAATCAATTCATTTACTTATGAAACAGCCACTACgtgagaaaagtcccctttcctttttcagatattattttttgatctgcagatttttctttaacgcaagatgata--aataagtcttggcttctaggcctgccatatctccaggcatctggttat--gatttga---cttattccttgttga--gcag-----------------------------
| |  |   ||  |   |  ||||||||||||||||||||||||||||| |||| ||| ||||| |||||||| |||||||| ||||| || ||  | | |||||  |||   | | | | |||  |  | || ||||||  | |     || |  || ||    |||| |||   | | ||  |   |||    | |    | |  |   |  | |  || |   | |||    ||| | |    || |  | ||                             
TCAATGGGGATCTAAAAGATTTTCCAATTCGAACAATATATTTTGAGAGTCCTTGTGCATTCCCAGAAATCAACTCATTTACCTATGATACTGCTGCCATgtgagtgaagcttcttcttcctttctactttttttttttt--ttttttatttgtcattgaagtttagataatattgagaggtgatatattcctcccttaatttctaccattgtttgtaatttttaaacttggaggcttgtcctcctttaaaggtagagcagctaatgattttttttcttgagcag

upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT5G03430.1 (Arabidopsis thaliana), 5'ss of exon 4
----TAACAGATCATGAAGTTGCATTTCCAATTCGAACAATATATTTTGAGAGCCCTTCTGCTTTCCCTGAAATCAATTCATTTACTTATGAAACAGCCACTACgtgagaaaagtcccctttcctttttcagatattattttttgatctgcagatttttctttaacgcaagatgataaataagtcttggcttctaggcctgccatatctccaggcatctggttatgatttgacttattccttgttgagcag
    |    |   || |||||    ||||| | || || || |||||||||||||||||||| ||| ||||||||||| | ||||| || ||  | ||    |||| |||| ||| |  | |  |  |     ||| || ||||   |||| | ||       |||  |  ||  ||    | ||| |||                                                             
CTAATGGTGGTCTATCAAGTT----TTCCAGTCCGGACCATTTATTTTGAGAGCCCTTCTGCCTTCACTGAAATCAATGCTTTTACATACGATGCTGCTCAAACgtaagaatagttcgttctattcctctgtgtatgatatttt---ctgctggtt-------aactgatcatcttattcta-tctcggcag-----------------------------------------------------------

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|71855620|gb|DT004675.1|DT004675
EST:     CCTTCTGCTTTCCCTGAAATCAATTCATTTACTTATGAAACAGCCACTAC                         CTATGGTTTGCAAATGGACATCATTCGTCTAGATTTCAAGTCTGGTTTGGA
genomic: CCTTCTGCTTTCCCTGAAATCAATTCATTTACTTATGAAACAGCCACTACgtgagaaaag ... tgttgagcagCTATGGTTTGCAAATGGACATCATTCGTCTAGATTTCAAGTCTGGTTTGGA
EST: gi|71855442|gb|DT004497.1|DT004497
EST:     CCTTCTGCTTTCCCTGAAATCAATTCATTTACTTATGAAACAGCCACTAC                         CTATGGTTTGCA
genomic: CCTTCTGCTTTCCCTGAAATCAATTCATTTACTTATGAAACAGCCACTACgtgagaaaag ... tgttgagcagCTATGGTTTGCA