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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTGTAGAGTTTATGCCATTCTTTTTGTCACTCTTTGTCTTCCTCTGTGGTACTTCGTGGTTCGTCTATGGTCTAATCGGTCGTGACCCTTTTGTTGCAgtaagttacaatttctccttcttgtgttgttttctttggtaaatatcaaaactttgtttctaactttgggtttttgttgttgcgaag

Basic information

species Arabidopsis thaliana
transcript AT1G21460.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G21460.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA14G27610.1 (Glycine max), 5'ss of exon 5
GAGTGTAGAGTTTATGCCATTCTTTTTGTCACTCTTTGTCTTCCTCTGTGGTACTTCGTGGTTCGTCTATGGTCTAATCGGTCGTGACCCTTTTGTTGCAgtaagt--tacaat----ttctccttcttgtgttgttttc---tttggtaaatat----caaaact--ttgtttctaactttgggtttttgttgttgcgaag-----------------------
||| || ||||| ||||| |||||  | ||||||||||| ||||||||||||||||| |||||| |||| || ||| | || |||||||| ||||| || ||||||   ||| |    || |||   || | |   |||    || | | ||||     ||| ||   ||||  |||  |||    ||    | ||| |  |                       
GAGCGTGGAGTTCATGCCCTTCTTCCTCTCACTCTTTGTGTTCCTCTGTGGTACTTCTTGGTTCATCTACGGGCTACTAGGCCGTGACCCATTTGTGGCTgtaagtagcacactaacattatccacgttttatcaattttcaattggatcaatacaatacaatacaaattgtcacta-ttttaaacttaccctcttgggttgcaattggcttgtattgaacgtag

upper sequence: AT1G21460.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G12740.2 (Glycine max), 5'ss of exon 5
GAGTGTAGAGTTTATGCCATTCTTTTTGTCACTCTTTGTCTTCCTCTGTGGTACTTCGTGGTTCGTCTATGGTCTAATCGGTCGTGACCCTTTTGTTGCAgtaagt-----tacaatttctccttc----ttgtgttgttttctttggtaaat---atcaaaactttgtttctaactttgggtttttgttgttgcgaag-
|||||| ||||| ||||| ||||| ||||| || ||||| || |||||||| ||||| |||||  ||| ||||||  | || |||||||| |||||||||||||||     | ||||||   |||     |||||       ||  || |||    | |    || |        | | || |   | |   |  |||  
GAGTGTGGAGTTCATGCCCTTCTTCTTGTCGCTGTTTGTGTTTCTCTGTGGCACTTCCTGGTTTATCTTTGGTCTGCTAGGCCGTGACCCATTTGTTGCAgtaagtcactttgcaattttaacttaacaattgtgcatagagctggggcaaaatggaccggtcctgtaaggtcggcctgggctgagtttgaatcagaaaa

upper sequence: AT1G21460.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA04G42040.1 (Glycine max), 5'ss of exon 5
GAGTGTAGAGTTTATGCCATTCTTTTTGTCACTCTTTGTCTTCCTCTGTGGTACTTCGTGGTTCGTCTATGGTCTAATCGGTCGTGACCCTTTTGTTGCAgtaagtta-----caatttctccttcttgtgttgttttctttggtaaatatcaaaactttgtttctaactttgggtttttgttgttgcgaag----------------------------------
|||||| ||||| ||||| ||||| ||||| || ||||| || ||||| || ||||| |||||  ||| ||||||  | || |||||||| ||||||||||||||| |     ||||||   |||    || |   |  |||  ||  ||| |            |  | | |    |    |||| |  ||                                  
GAGTGTGGAGTTCATGCCCTTCTTCTTGTCTCTGTTTGTTTTTCTCTGCGGCACTTCCTGGTTTATCTTTGGTCTGCTAGGCCGTGACCCATTTGTTGCAgtaagtcactttgcaattttaacttacaatggtacatagtttcatatttattattggcagtgcagtggcatagacaataaaatgttacatagtttcatagtttcatattcatgtatggtttttcag

upper sequence: AT1G21460.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA13G09140.1 (Glycine max), 5'ss of exon 5
GAGTGTAGAGTTTATGCCATTCTTTTTGTCACTCTTTGTCTTCCTCTGTGGTACTTCGTGGTTCGTCTATGGTCTAATCGGTCGTGACCCTTTTGTTGCAgtaagttacaatttctcctt-cttgtgtt-----gttttc--tttggtaaatatca---aaactttgtttctaact--ttgggtttttgttgttgcgaag
||| || ||||| ||||| |||||  | ||||||||||| ||||||||||| || || |||||| |||| || ||| | || |||||||| ||||| || ||||||  ||   || | ||      |||     ||||||  || | | ||||  |   |||       | | |||  ||     |    | |||    |
GAGCGTGGAGTTCATGCCCTTCTTCCTCTCACTCTTTGTGTTCCTCTGTGGCACATCTTGGTTCATCTACGGGCTACTAGGCCGTGACCCATTTGTGGCTgtaagtagcacactcacattatccacgtttatcagttttcaattggatcaatacaatacaaatacaaaatgtcactatttaaacataccctattgtattg

upper sequence: AT1G21460.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv18s0001g15330.t01 (Vitis vinifera), 5'ss of exon 5
GAGTGTAGAGTTTATGCCATTCTTTTTGTCACTCTTTGTCTTCCTCTGTGGTACTTCGTGGTTCGTCTATGGTCTAATCGGTCGTGACCCTTTTGTTGCAgtaagttacaatttctccttcttgtgttgttttct--ttggtaaatatcaaaactttgtttc---taactttgggtttttgttgttgcgaag
|||||||||||  ||||| ||||| || ||||| || || |||||||| |||||||| ||||| |||| ||| ||| |||||   ||||| ||||| || |||||       | ||  |    || |   | | |  | || || || | ||  | |  ||     ||    |   || | | ||   | ||
GAGTGTAGAGTACATGCCCTTCTTCTTATCACTGTTCGTGTTCCTCTGCGGTACTTCCTGGTTTGTCTTTGGCCTACTCGGTAAAGACCCCTTTGTCGCGgtaagcgcttggtccttgtcgaggtttgcctatgtggtggggaattacccaatttgtagtttaatcaagcgggacattatatggtgctgcag

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|86082349|gb|DR378108.1|DR378108
EST:     GTACTTCGTGGTTCGTCTATGGTCTAATCGGTCGTGACCCTTTTGTTGCA                         ATCCCAAATGGGTTTGGATGTGCATTAGGGACACTGCAATTGATACTATAC
genomic: GTACTTCGTGGTTCGTCTATGGTCTAATCGGTCGTGACCCTTTTGTTGCAgtaagttaca ... tgttgcgaagATCCCAAATGGGTTTGGATGTGCATTAGGGACACTGCAATTGATACTATAC
EST: gi|86075238|gb|DR370995.1|DR370995
EST:     GTACTTCGTGGTTCGTCTATGGTCTAATCGGTCGTGACCCTTTTGTTGCA                         ATCCCAAATGGGTTTGGATGTGCATTAGGGACACTGCAATTGATACTATAC
genomic: GTACTTCGTGGTTCGTCTATGGTCTAATCGGTCGTGACCCTTTTGTTGCAgtaagttaca ... tgttgcgaagATCCCAAATGGGTTTGGATGTGCATTAGGGACACTGCAATTGATACTATAC