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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACCCTCTTGACTTGCTACCACCAAGCCCTATGGTTCTAGATGATTGGAAGAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtgatatcttcctctacctagtttttcagctttgctatcagggaattatttagctattggaatcaattgttttttatcatgtctaatattgtggctcaaatgcag

Basic information

species Arabidopsis thaliana
transcript AT1G09640.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G09640.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os06g37440.1 (Oryza sativa), 5'ss of exon 7
AACCCTCTTGACTTGCTACCACCAAGCCCTATGGTTCTAGATGATTGGAAGAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtgatatcttcctctacctagtttttcagctttgctatcagggaattatttagctattggaatcaattgttttttatcat-gtctaatattgtggctcaaatgcag
|| ||||||||  | || |||||||||   ||| |||| ||||| ||||||||||| ||||||||||| ||| | |||||||| ||  |||| ||||||||| | |  |  ||| ||  |  |   | ||  ||   ||          | ||    |||| | | |  |     | || ||||||| | || || ||||             
AATCCTCTTGATCTACTGCCACCAAGCAAGATGATTCTTGATGAGTGGAAGAGGCTATACTCAAACACAAAAACCAACTTCCGTGAAATTGCCATTAAAGgtat-tatttctattttgtttcag--aattgctctatttgatatattaagtatctcctagcaagttgtgtggggggcttgttatcattggctgattttgtcta----------

upper sequence: AT1G09640.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os02g12800.1 (Oryza sativa), 5'ss of exon 7
AACCCTCTTGACTTGCTACCACCAAGCCCTATGGTTCTAGATGATTGGAAGAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtgatatcttcctctacctagtttttcagctttgctatcagggaattatttagctattggaatcaattgttttttatcatgtctaatattgtggct-caaatgcag--
|| |||||||| ||||| || ||||||   ||| | || ||||| ||||||||| | ||||||||||| ||| | |||||||| ||||||||||| || |||  ||         ||| | |    | | |   ||       |  |   | || |  || ||    |||  ||||  ||   |  |  | ||   | ||  | |||||   |  
AATCCTCTTGATTTGCTCCCTCCAAGCAAAATGATCCTTGATGAGTGGAAGAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGGgtaagt---------ttcttttttggaatctactagtc-----agtaaaaagtt-tccagatagacaaatttattgcattgctttgttgcaaaggatatgaatacaaattaggat

upper sequence: AT1G09640.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os02g12794.3 (Oryza sativa), 5'ss of exon 6
AACCCTCTTGACTTGCTACCACCAAGCCCTATGGTTCTAGATGATTGGAAGAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtgatatcttcctctacctagtttttc--agctttgctatcagggaattat--ttagctattggaatcaattgttttttatcatgtctaatattgtggctcaaatgcag
||||||||||| ||||| || ||||||   ||| | || ||||| ||||||||| | ||||||||||| ||| | || ||||| ||||||||||| || |||  ||  |  | |     ||||  ||||   |   || ||| |    ||  || |||  ||   |   |||||| | |  |   ||  | |  |   |  |              
AACCCTCTTGATTTGCTCCCTCCAAGCAAGATGATCCTTGATGAGTGGAAGAGGTTATACTCAAACACAAAAACAAATTTCCGTGAGGTTGCTATCAAGGgtaagtt-tcttttgggaatctag-tagtcactaaaaggtttccacgtagaaaagtatagtttctttcgggaatctagtagtcactaaaaaggtttccacag--------------

upper sequence: AT1G09640.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G122871_T02 (Zea mays), 5'ss of exon 6
AACCCTCTTGACTTGCTACCACCAAGCCCTATGGTTCTAGATGATTGGAAGAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtgatatcttcctctacctagtttttcagctttgctatcagggaattatttagctattggaatcaattgttttttatcatgtctaatattgtggctcaaatgcag
|| |||||||||||||| |||||||||   ||||| || ||||| ||||||||||| ||||||||||| ||  |||||||||| |||||||| || |||||| |        || || |  |     | |    |  ||||||        |  | ||    | || ||     || |||||   || | || | |||              
AATCCTCTTGACTTGCTGCCACCAAGCAAGATGGTCCTTGATGACTGGAAGAGGCTATACTCAAACACAAAGACTAACTTCCGGGAGGTTGCCATCAAAGgtat-catctccatgtttcaatgatatgatcaatacatttgcttcttccctaacaattttgaactgcaagtggctggtttttgaaatctgtact-ttgcaat----------

upper sequence: AT1G09640.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G134582_T01 (Zea mays), 5'ss of exon 7
AACCCTCTTGACTTGCTACCACCAAGCCCTATGGTTCTAGATGATTGGAAGAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtgatatcttcctctacctagtttttcagctttgctatcagggaat-tatttagctattggaatcaattgttttttatcatgtctaatattg-tggctcaaatgcag
||||||||||| ||||| || || |||   ||| |||| ||||||||||||||||| ||||| ||||| ||| | |||||||| |||||||||||||||||| |||     |   |     ||  |   | || |  |||  || ||  || | |  |||  || |   |  ||| | || |    |  |   |||||  |  ||         
AACCCTCTTGATTTGCTTCCTCCTAGCAAGATGATTCTTGATGATTGGAAGAGGCTGTACTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtt----tgcttgttgttaaattcctgttgaatttttttaacaatgattatggttacatagttttaataat-gattatggctacatgagatattactaact---------

upper sequence: AT1G09640.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G059580_T03 (Zea mays), 5'ss of exon 5
AACCCTCTTGACTTGCTACCACCAAGCCCTATGGTTCTAGATGATTGGAAGAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtgatatcttcctctacctagtttttcagctttgctatcagggaattatttagctattggaatcaattgttttttatcatgtctaatattgtggctcaaatgcag
|| |||||||||||||| |||||||||   ||||| || ||||| ||||||||||| ||||||||||| ||  | |||||||| |||||||| || |||||| |||  || |   |||    |  |  | | |  |  | |||       ||        || ||  |||| ||   | ||        ||||  ||| |            
AATCCTCTTGACTTGCTGCCACCAAGCAAGATGGTCCTTGATGACTGGAAGAGGCTATACTCAAACACAAAGACCAACTTCCGGGAGGTTGCCATCAAAGgtatgtt-tgcttctttctaacaatttttatgtgcgagtggctggtgttaaaaggcagtact-ttacaatctatcaatcttacaggaagctaaatttgggag----------

upper sequence: AT1G09640.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G029559_T02 (Zea mays), 5'ss of exon 7
AACCCTCTTGACTTGCTACCACCAAGCCCTATGGTTCTAGATGATTGGAAGAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtgatatcttcctctacctagtttttcagctttgctatcagggaattatttagctattggaatcaattgttttttatcatgtctaatattgtggctcaaatgcag
|| || ||||| ||||| || || |||    || |||| || |||||||||||||| || || ||||| ||| | |||||||| |||||||||||||||||| |||  |  || |     |||  | |||    || |||   | ||  || || ||||  || |   | ||||  || |   | |  |   |||||     | | |     
AATCCCCTTGATTTGCTTCCTCCGAGCAAGTTGATTCTTGACGATTGGAAGAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtttt--taacaatgacta--tggttacatagtttt---aacaatgattttttta--tagttttaacaataattatgc-ttacataagatattactaattagaaag--

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|86083543|gb|DR379302.1|DR379302
EST:     CCAAATTCTAACTTCCGCGAGGTTGCTATTAAAG                         GATTTTGGGACATGTATGACCCAGAGGGATACTCACTATGGTTCTGTGACT
genomic: CCAAA-TCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtg ... tcaaatgcagGATTCTGGGACATGTATGACCCAGAGGGATACTCACTATGGTTCTGTGACT
EST: gi|86079648|gb|DR375405.1|DR375405
EST:     GA-GCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAG                         GATTCTGGGACATGTATGACCCAGAGGGATACTCACTATGGTTCTGTGACT
genomic: GAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtg ... tcaaatgcagGATTCTGGGACATGTATGACCCAGAGGGATACTCACTATGGTTCTGTGACT
EST: gi|301501927|gb|HO207467.1|HO207467
EST:     GAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAG                         GATTCTGGGACATGTATGACCCAGAGGGATACTCACTATGGTTCTGTGACT
genomic: GAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtg ... tcaaatgcagGATTCTGGGACATGTATGACCCAGAGGGATACTCACTATGGTTCTGTGACT