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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGAGTTCGGgtatgtggttaatccaattcattatttcattatttgaaaattggtaatggtcttatatgttatggtttctgcactctcag

Basic information

species Arabidopsis thaliana
transcript AT4G15570.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G15570.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os06g20500.1 (Oryza sativa), 5'ss of exon 10
GAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGAGTTCGGgtatgtggttaatccaattcattatttcattatttgaaaat----tggtaatggtcttatatgtt--atggtttctgcactct-cag---------------------------------------------------------------------------------------
||||| || | | | | ||| |||||  |    | |||  | |||||||||||||| ||||| |||||||||||||||||| ||||  |||||    | ||||   || |        | | |  | || |     |||||    ||  |||     ||    ||  || |  ||      || ||                                                                                        
GAGGTCGTAAGTTCCAATCGCAAGTATCGGGCCCATGTCTTGGTCTGTGCTCCATCCAACTCAGCACTTGATGAGATTGTGCTGCGAGTTCTGCAAACAGgtaaaggggtttctgtgctgactgatccaattcagaaaaatgttctgacaataaaaatactctttcaattgcatccatgtgctacaaactaaacaacatttcttaggctcatctggtcactaatttattgatcggaaaatcaatcatctaaattattattcttcttcctttcag

upper sequence: AT4G15570.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os04g34670.1 (Oryza sativa), 5'ss of exon 8
GAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGAGTTCGGgtatgtggttaatccaattcattatttcattatttgaaaat----tggtaatggtcttatatgtt--atggtttctgcactct-cag---------------------------------------------------------------------------------------
||||| || | | | | ||| |||||  |    | |||  | |||||||||||||| ||||| |||||||||||||||||| ||||  |||||      ||||   || |        | | |  | || |     |||||    ||  |||     ||    ||  || |  ||      || ||                                                                                        
GAGGTCGTAAGTTCCAATCGCAAGTATCGGGCCCATGTCTTGGTCTGTGCTCCATCCAACTCAGCACTTGATGAGATTGTGCTGCGAGTTCTGCAAATAGgtaaaggggtttctgtgctgactgatccaattcagaaaaatgttctgacaataaaaatactctttcaattgcatccatgtgctacaaactaaacaacatttcttaggctcatctggtcactaatttattgatcggaaaatcaatcatctaaattattattcttcttcctttcag

upper sequence: AT4G15570.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G171961_T01 (Zea mays), 5'ss of exon 11
-GAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGAGTTCGGgtatgtggttaatccaattcattatttcattatttgaaaattggtaatggtcttatatgttatggtttctgcactctcag
     |||   ||      |  |  |  | |  |     |  | | |     ||   |||   |    |  |   |   || | | ||||  || |||  ||| |||| |  |||||| |||  | |  || |  |     |  ||  |  |   | | || | |                
GTTCTTGGACTATTTACCCCTTACATGGAAAAGAAAAAAATCTTTATAGAAACC-CGAAATCgtaagttccaatcgcaagtatcg-ggctcatgtgtt--ggtgtgtgctccatccaactcagcactcgatgagatcgtgttgcgtgttcttaagacaggtaaag----------------

upper sequence: AT4G15570.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA05G25210.1 (Glycine max), 5'ss of exon 14
GAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGAGTTCGGgtatgtggttaatccaattcattatttcattatttgaaaattggtaatggtcttatatgttatggtttct-gcactct-cag------------------------
|| |   | | | | | ||| |||||  |  || | || || || || || |||||||||||||| |||||||||||||||||| || || | | |   ||||||  |||  || ||| ||||     | |||  ||||   | |  |  |||| |    ||   || || ||  | | |||                        
GAAGCTCTAACTTCAAATCGTAAGTATCGTGTAAGAGTGCTAGTATGCGCCCCATCAAACTCTGCCCTTGATGAGATTGTGTTGAGGGTTTTCAATGGAGgtatgaagtttctctaatgcatt----taatatgggaaagaagttttt--tcttttgcactacatttccttgcgttatgcagcaatgctactagagcaaaagagtg

upper sequence: AT4G15570.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G08230.1 (Glycine max), 5'ss of exon 12
GAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGAGTTCGGgtatgtggttaatccaattcattatttcattatttgaaaattggtaatggtcttatatgttatggtttct-gcactct-cag------------------------
|| |   | | | | | ||| |||||  |  || | ||  | || || || |||||||||||||| |||||||||||||||||| || || | | |   ||||||  |||  || ||| ||||     | |||  | |||  | |  |  |||| |    ||   || || ||| | | ||                         
GAAGCTATAACTTCAAATCGCAAGTATCGTGTAAGAGTGTTAGTATGCGCCCCATCAAACTCTGCCCTTGATGAGATTGTGTTGAGGGTTTTCAATGGAGgtatgaagtttctctaatgcatt----taatatggggaaaaagttttt--tcttttgcaatacatttccttgcattatgcaacaatgctactagagcaaaagaatg

upper sequence: AT4G15570.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv19s0015g00460.t01 (Vitis vinifera), 5'ss of exon 10
GAGGTGGTTAATGCGAGTCGGAAGTACAGATTACGTGTACTTGTCTGTGCTCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGAGTTCGGgtatgtg-gttaatccaattcattatttcattatttgaaaattggtaatggtcttatatgttatggtttctgcac---tctcag-----------------
||  | |||| | | ||||| || ||  |  |||| ||||| || |||||||||||||| ||||| |||||||||||||||||||| ||||| | | | ||||   |  |  || | || |||  | |||||         ||  |  || | || |        || |||| |    | |  |                 
GAAATAGTTACTTCCAGTCGTAAATATCGTGTACGGGTACTGGTATGTGCTCCATCAAATTCTGCGCTTGATGAGATTGTGTTGCGCCTTCTAAATACTGgtacaagtatctatgctatgcatgttatcattccccctcg-tttctcttgcttttgttatcacctgtgtctggatgcattttggttttcctcatataaatt

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|116422174|gb|EG464766.1|EG464766
EST:     TCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGAGTTCGG                         GTCTTCGTGACGAAAACGCCCAGACATATACACCCAAAATAGTACGAATTG
genomic: TCCATCAAACTCTGCACTTGATGAGATTGTGTTGCGGCTTCTGAGTTCGGgtatgtggtt ... gcactctcagGTCTTCGTGACGAAAACGCCCAGACATATACACCCAAAATAGTACGAATTG