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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACACTGGATGCTCATCAGAAAGGAGTCAACTGTGTAGATTATTTCACAGGGGGTGATAAACCCTATCTAATTACCGGCTCTGATGATCATACTGCTAAGgtatgcttctggttaagcttccaatatctgtgctttgattcccctgagaattatgtatttgcagatcgtttactagtggtactttttcag

Basic information

species Arabidopsis thaliana
transcript AT3G15980.3
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G124886_T04 (Zea mays), 5'ss of exon 7
TACACTGGATGCTCATCAGAAAGGAGTCAACTGTGTAGATTATTTCACAGGGGGTGATAAACCCTATCTAATTACCGGCTCTGATGATCATACTGCTAAGgtatgcttctggttaagcttccaatatctgtgctttgattcccctgagaattatgtatttgcagatcgt-ttactagtggtactttttcag
 ||||| ||||  |||   ||||| || |||||||| ||||| ||||| || ||||||  ||| || |||||||| |||||||||||||| ||||| ||||| ||        |||||    |||   ||| ||    |   | ||    |  | | |   | |||    ||| |  |   |         
CACACTAGATGGCCATTCCAAAGGTGTGAACTGTGTTGATTACTTCACTGGTGGTGATCGACCATACCTAATTACTGGCTCTGATGATCAGACTGCAAAGgtttgtca-----taagcactgaat---tgtactcctgtgatcatgtctgtactctgtacactgatgacattattgatcaaatcag-----

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 8
TACACTGGATGCTCATCAGAAAGGAGTCAACTGTGTAGATTATTTCACAGGGGGTGATAAACCCTATCTAATTACCGGCTCTGATGATCATACTGCTAAGgtatgcttctggttaagcttccaatatctgtgctttgattcccctgag-aattatgtatttgcagatcgtttactagtggtactttttcag
 ||| |||||| ||||   ||||| ||||| ||||| ||||| ||||| || |||||    || ||||||||||| ||||||||||| || ||||| ||||||||      ||| |  | |  ||||  |   ||||       |||   |||   ||  |  |  | |                      
CACATTGGATGGTCATTCAAAAGGTGTCAATTGTGTTGATTACTTCACTGGTGGTGACCGGCCATATCTAATTACAGGCTCTGATGACCAAACTGCAAAGgtatgacat--gttcatttgcacatatgagcattttggacattatgactgattggttaacttgaattag----------------------

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 7
TACACTGGATGCTCATCAGAAAGGAGTCAACTGTGTAGATTATTTCACAGGGGGTGATAAACCCTATCTAATTACCGGCTCTGATGATCATACTGCTAAGgtatgcttctggttaagcttccaatatctgtgctttgattcccctgagaat-tatgtatttgcagatcgtttactagtggtactttttcag---------------
|||  |||||||||||||||||||||| || ||||| |||||||| ||||| ||||| ||||| |||||||| || || ||||||||||| ||||||||||| |  || |  ||         || | | |||||  |  |   |    ||  ||  || |  | ||   | |  ||   ||   |    |               
TACTTTGGATGCTCATCAGAAAGGAGTGAATTGTGTTGATTATTTTACAGGTGGTGACAAACCATATCTAATCACTGGTTCTGATGATCACACTGCTAAGgttttgttttcatttgttgcttgatctatctgcttgtacgcatttacatatacatacatatatatatatatgaaaaggaataacatggatgaaacttatgaatcag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 7
TACACTGGATGCTCATCAGAAAGGAGTCAACTGTGTAGATTATTTCACAGGGGGTGATAAACCCTATCTAATTACCGGCTCTGATGATCATACTGCTAAGgtatgcttctggttaagcttccaatatctgtgctt----tgattcccctgagaattatgtatttgcagatcgtttactag--tggtactttt---tcag
|||  |||||||||||||||||||||| || ||||| |||||||| ||||| ||||| ||||| |||||||| || || ||||||||||| ||||||||||| |  || |  ||        ||| | | |||||     |    | |  | |   |  | | || | |    | ||  |  ||  ||||     ||||
TACTTTGGATGCTCATCAGAAAGGAGTGAATTGTGTTGATTATTTTACAGGTGGTGACAAACCATATCTAATCACTGGTTCTGATGATCACACTGCTAAGgttttgttttcatttgttgcttaatctatctgcttgtcgcgcacacgcacacacacacatgtatgaaaaggaataacatggatgaaacttacgaatcag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 7
TACACTGGATGCTCATCAGAAAGGAGTCAACTGTGTAGATTATTTCACAGGGGGTGATAAACCCTATCTAATTACCGGCTCTGATGATCATACTGCTAAGgtatgcttctggttaagcttccaatatctgtgctttgattcccctgagaattatgtatttgcagatcgtttactagtggtactttttcag---------------------
|||| ||||||| ||||| |||||||| || ||||| ||||| || ||||| ||||| || || |||||||| || || ||||||||||| ||||| ||||| || ||    ||    |||   | | |   |||    | ||||   | ||   |   |  |  | || ||    | | | || ||  |                     
TACATTGGATGCGCATCAAAAAGGAGTGAATTGTGTTGATTACTTTACAGGTGGTGACAAGCCTTATCTAATAACTGGTTCTGATGATCACACTGCCAAGgtttgttttctatt----ttctgttttttcctcttcatcttccctctaatttggtttcctatat-ttgtatatggataggaattattatgccgataaaacctttgaatcag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 7
TACACTGGATGCTCATCAGAAAGGAGTCAACTGTGTAGATTATTTCACAGGGGGTGATAAACCCTATCTAATTACCGGCTCTGATGATCATACTGCTAAGgtatgctt--------ctggttaagcttccaatatctgtgctttgattcccctgagaat-tatgtatttgca----gatcgtt-tactagtggtactttttcag---
|||  ||||||| ||||| |||||||| || ||||| ||||| || ||||| ||||| ||||| || || || || || ||||||||||| ||||| ||||| || ||        ||| ||       |   ||||   |||| |||    ||   || | ||||| || |     ||  || | | | |   || |||  |    
TACGTTGGATGCCCATCAAAAAGGAGTGAATTGTGTTGATTACTTTACAGGTGGTGACAAACCTTACCTGATAACTGGTTCTGATGATCACACTGCCAAGgtttgttttctattttctgtttttttcctcttcatcttccctttaatttggttgcctatatgtgtatatggataggaattattatgccaataaaacctttgaaacag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 7
TACACTGGATGCTCATCAGAAAGGAGTCAACTGTGTAGATTATTTCACAGGGGGTGATAAACCCTATCTAATTACCGGCTCTGATGATCATACTGCTAAGgtatgcttctggttaagcttccaatatctgtgctttgattcccctgagaattatgtatttgca-gatcgtttactagtggtactttttcag
|||||||||||| ||||||||||| || || ||||| ||||| || ||||| ||||||||||| |||||||| || || ||||||||||||||||||||||| |||   || | |   ||   | | ||||| || |  |       |  | ||  |     | | || |  || | |  | |   | |||
TACACTGGATGCCCATCAGAAAGGGGTAAATTGTGTTGATTACTTTACAGGCGGTGATAAACCATATCTAATCACGGGTTCTGATGATCATACTGCTAAGgtctgccgttgataattattttca-agctgtgtttagtatttatgcggtttgatagaaggaaatgttcatggacaaatcctccaaatgcag

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|116382436|gb|EG425028.1|EG425028
EST:     GGGGTGATAAACCCTATCTAATTACCGGCTCTGATGATCATACTGCTAAG                         GTATGGGACTATCAAACCAAAAGTTGTGTCCAGACGCTAGATGGGCACACA
genomic: GGGGTGATAAACCCTATCTAATTACCGGCTCTGATGATCATACTGCTAAGgtatgcttct ... actttttcagGTATGGGACTATCAAACCAAAAGTTGTGTCCAGACGCTAGATGGGCACACA
EST: gi|116382434|gb|EG425026.1|EG425026
EST:     GGGGTGATAAACCCTATCTAATTACCGGCTCTGATGATCATACTGCTAAG                         GTATGGGACTATCAAACCAAAAGTTGTGTCCAGACGCTAGATGGGCACACA
genomic: GGGGTGATAAACCCTATCTAATTACCGGCTCTGATGATCATACTGCTAAGgtatgcttct ... actttttcagGTATGGGACTATCAAACCAAAAGTTGTGTCCAGACGCTAGATGGGCACACA