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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTACATATGGGCTTGTCCGCCGCTGAAGGGCGAGGATTATATCTTATATTGTCATCCAGAAATTCAGAAGACGCCAAAATCTGATAAACTACGAGAGTGgtcagttcatttacctttttgggatgaacttcgtaaactttcatatgaaaaagtcatttacatcatccaactgcccacgttgttattcgcag

Basic information

species Arabidopsis thaliana
transcript AT1G79000.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79000.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os06g49130.2 (Oryza sativa), 5'ss of exon 10
GCTACATATGGGCTTGTCCGCCGCTGAAGGGCGAGGATTATATCTTATATTGTCATCCAGAAATTCAGAAGACGCCAAAATCTGATAAACTACGAGAGTGgtcagttcatttacctttttgggatgaacttcgtaaactttcata-tgaaaaagtcatttacatcatccaactgcccacgttgttattcgcag--------------
| || ||||||||||| || ||  | || || || ||||| || || ||||| |||||||| ||||||||||| ||||| ||||||||||| ||  |||||| ||  |||  |     |||| ||  |  | || | | ||  || |      |     |   |     || ||| |  |   ||    |||               
GTTATATATGGGCTTGCCCTCCTGTTAAAGGTGAAGATTACATTTTGTATTGCCATCCAGAGATTCAGAAGACACCAAAGTCTGATAAACTGCGTCAGTGgtaagaccataga-----ttggcatctatgttgttatccttgttaatagtgtggctgcatttgtggggtaa-tgctc-tgcccttggcagcaaaaaaatggtttctg

upper sequence: AT1G79000.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G139977_T02 (Zea mays), 5'ss of exon 4
GCTACATATGGGCTTGTCCGCCGCTGAAGGGCGAGGATTATATCTTATATTGTCATCCAGAAATTCAGAAGACGCCAAAATCTGATAAACTACGAGAGTGgtcagt-tcatttacctttttgggatga--acttcgtaaactttcat--atgaaaaagtcatttacatcatccaactgcccacgttgttattcgcag
| ||||||||||||||||| ||  ||||||| || ||||| ||||||||||| ||||| || ||||| ||||| || |||||||||||||| || ||||||| ||  | |   ||    |||   |     |||    | | | ||    |   || ||| |||||| |                            
GTTACATATGGGCTTGTCCACCTTTGAAGGGTGAAGATTACATCTTATATTGCCATCCTGAGATTCAAAAGACTCCGAAATCTGATAAACTGCGTGAGTGgtaagccttagagacacaattgatcttgttgcttttagatcctccaccagttctaatgtcttttacacccag-------------------------

upper sequence: AT1G79000.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G470556_T01 (Zea mays), 5'ss of exon 10
GCTACATATGGGCTTGTCCGCCGCTGAAGGGCGAGGATTATATCTTATATTGTCATCCAGAAATTCAGAAGACGCCAAAATCTGATAAACTACGAGAGTGgtcagttcatttacctttttgggatgaacttcgtaaactttcatatgaaaaagtcatttacatcatccaactgcccacgttgttattcgcag--
| |||||||||||||| || ||  ||||||| || ||||| ||||||||||| ||||| || ||||| ||||| || |||||||| ||||| || ||||||| ||     |||  | |     ||     | ||    |||         |  || |  ||    || ||   |      | |||| | |    
GTTACATATGGGCTTGCCCACCTTTGAAGGGTGAAGATTACATCTTATATTGCCATCCTGAGATTCAAAAGACTCCGAAATCTGACAAACTGCGTGAGTGgtaagcc---ttaggtgtcca--attggtcttgttgctttt---------agatcctccaccatttctaatgtcttttactcttatccacccag

upper sequence: AT1G79000.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA15G00250.1 (Glycine max), 5'ss of exon 11
GCTACATATGGGCTTGTCCGCCGCTGAAGGGCGAGGATTATATCTTATATTGTCATCCAGAAATTCAGAAGACGCCAAAATCTGATAAACTACGAGAGTGgtcagttcatttacctttttgggatgaacttcgtaa--actttcatatgaaaaagtcatttacatcatccaactgcccacgttg-ttattcgcag--------------------------------
||||||||||||| ||||| ||  | ||||| || |||||||| |||||||||||||| ||||||||||| || |||||||||||||| ||  | || |||| |||| |    |   ||  |||| ||| |  | |  |  |  |  ||   || |  |||||||   | || ||| || | |  | |||   |                                 
GCTACATATGGGCATGTCCTCCATTAAAGGGTGAAGATTATATTTTATATTGTCATCCGGAAATTCAGAAAACTCCAAAATCTGATAAGCTTAGGGAATGgtaagtttaaaagc---ttcaggataaacataatgagaaagtgaagttgcctaattgttttacatgtacaaaatgctcaaggtactcatttctaactatagtttgtttcatgaacaatttccaacag

upper sequence: AT1G79000.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA07G00230.1 (Glycine max), 5'ss of exon 11
GCTACATATGGGCTTGTCCGCCGCTGAAGGGCGAGGATTATATCTTATATTGTCATCCAGAAATTCAGAAGACGCCAAAATCTGATAAACTACGAGAGTGgtcagttcatttaccttttt-------------gggatgaactt---cgtaaactttcatatgaaaaagtcatttacatcatccaactgcccacgttgttattcgcag--------------
|||| || ||||||||||| ||  | ||||| || |||||||| |||||||| ||||||||||||||||| || |||||||| ||||| ||||| || |||| ||   | |  | |   |             |  |  |||||     |  | |||| |   | || || |||    | || || || |  || |    ||| |                 
GCTATATCTGGGCTTGTCCTCCATTAAAGGGGGAAGATTATATTTTATATTGCCATCCAGAAATTCAGAAAACCCCAAAATCCGATAAGCTACGTGAATGgtgagcgtaatagcttcagtatatacaaaatgagaaaaaaacttgtctatttattttccttgtacaatgtgattaggtttattcatct-ctaacttcagcatttgtcaacatgtttctgcag

upper sequence: AT1G79000.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA08G24290.1 (Glycine max), 5'ss of exon 13
GCTACATATGGGCTTGTCCGCCGCTGAAGGGCGAGGATTATATCTTATATTGTCATCCAGAAATTCAGAAGACGCCAAAATCTGATAAACTACGAGAGTGgtcagttcatttacctttttg----------ggatgaacttcgtaaact---ttcatatgaaaaagtcatttacatcatccaactgcccacgttgttattcgcag--------------
|||| || ||||| ||||| ||  | ||||| || |||||||| |||||||| ||||||||||||||||| || |||||||| ||||| ||||| || |||| ||   | |  | |   |           | |  ||  | ||  | |   ||    || | ||     |||  | ||  | || |  || |    ||| | |               
GCTATATCTGGGCCTGTCCTCCATTAAAGGGAGAAGATTATATTTTATATTGCCATCCAGAAATTCAGAAAACACCAAAATCCGATAAGCTACGTGAATGgtgagcctaatagcttcagtatagacaaaatgaaaaaaagttgtctatttattttccttgtacaatgtgattaggttatttatct-ctaacttcagcatttgtaaacatgtttcttcag

upper sequence: AT1G79000.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 5'ss of exon 10
GCTACATATGGGCTTGTCCGCCGCTGAAGGGCGAGGATTATATCTTATATTGTCATCCAGAAATTCAGAAGACGCCAAAATCTGATAAACTACGAGAGTGgtcagttcatttacctttttgggat-gaacttcgtaaactttcata-------------tgaaaaagtcatttacatcatcc-aactgcccacgttgttattcgcag---------------
|||| |||||||||||||| ||  ||||||| || || ||||| || ||||| ||||| ||||||||||| || |||||||||||||||||  |||| |||| ||   | ||| | ||     || ||| || | |   ||| |               ||||| |    ||||   |  || ||     |  |||| | | | ||                
GCTATATATGGGCTTGTCCTCCTTTGAAGGGTGAAGACTATATATTGTATTGCCATCCTGAAATTCAGAAAACACCAAAATCTGATAAACTCAGAGAATGgtgagagtagttatcgttagaaaatagaagtttgaatcattttactagtttcaatttcctgaaataagtttttattcctccctaatccttctggttggtgtgcacaaaattttctatttcag

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|125081713|gb|EL142830.1|EL142830
EST:     CAAAATCTGATAAACTACGAGAGTG                         GTACTTAGCAATGTTGAGAAAAGCTTCAAAGGAGGGCATTGTTGCAGAAAC
genomic: CAAAATCTGATAAACTACGAGAGTGgtcagttcat ... ttattcgcagGTACTTAGCAATGTTGAGAAAAGCTTCAAAGGAGGGCATTGTTGCAGAAAC
EST: gi|116421535|gb|EG464127.1|EG464127
EST:     TGTCATCCAGAAATTCAGAAGACGCCAAAATCTGATAAACTACGAGAGTG                         GTACTTAGCAATGTTGAGAAAAGCTTCAAAGGAGGGCATTGTTGCAGAAAC
genomic: TGTCATCCAGAAATTCAGAAGACGCCAAAATCTGATAAACTACGAGAGTGgtcagttcat ... ttattcgcagGTACTTAGCAATGTTGAGAAAAGCTTCAAAGGAGGGCATTGTTGCAGAAAC
EST: gi|116455250|gb|EG497842.1|EG497842
EST:     TGTCATCCAGAAATTCAGAAGACGCCAAAATTTGATAAACTACGAGAGTG                         GTACTTAGCAATGTTGAGAAAAGCTTCAAAGGAGGGCATTGTTGCAGAAAC
genomic: TGTCATCCAGAAATTCAGAAGACGCCAAAATCTGATAAACTACGAGAGTGgtcagttcat ... ttattcgcagGTACTTAGCAATGTTGAGAAAAGCTTCAAAGGAGGGCATTGTTGCAGAAAC