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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTTGGGCTTTGAGCAAGTTTTACCCCAATGTCAAAACTTTTGTCCGTGCTCACGATGTTGTTCATGGTCTTAATCTAGAAAAAGCCGGTGCTACTGCAgtaatactcacagaccccttcactctcatctagactatagatatgctttgtcaatcgtacactaataatacctcgatcacaaaaacttttag

Basic information

species Arabidopsis thaliana
transcript AT1G01790.1
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G01790.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA18G46420.1 (Glycine max), 5'ss of exon 25
TGTTTGGGCTTTGAGCAAGTTTTACCCCAATGTCAAAACTTTTGTCCGTGCTCACGATGTTGTTCATGGTCTTAATCTAGAAAAAGCCGGTGCTACTGCAgtaatactcacagaccc-cttcactctcatctagactatagatatgctttgtcaatcgtacactaataatacctcgatcacaaaaacttttag----------
 |||||||||||||||||||  | ||| ||||| || |||||||| ||||| || ||||||| ||||||  | ||| ||||||| || || |||||||| |||||| || || |||   || | | |   |      || |   || |    ||||   | | || |  || |    |   |||  | || |           
-GTTTGGGCTTTGAGCAAGTACTTCCCAAATGTGAAGACTTTTGTTCGTGCCCATGATGTTGATCATGGATTAAATTTAGAAAAGGCTGGAGCTACTGCTGtaatattctcatacctattttagtgttccccgtttgattggc-tgatggtacaatttcaaattactggtagcatt-tggtaaatgcattcaaacgtctgaag

upper sequence: AT1G01790.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 21
TGTTTGGGCTTTGAGCAAGTTTTACCCCAATGTCAAAACTTTTGTCCGTGCTCACGATGTTGTTCATGGTCTTAATCTAGAAAAAGCCGGTGCTACTGCAgtaatactcacagaccccttcactctcatctagactatagatatgctttgtcaatcgtacactaataatacctcgatcacaaaaacttttag---------
 ||||||||||| |||||||  | ||| ||||| || |||||||| ||||| || || |||| ||||||  | ||| ||||||| || || |||||||| |||||| || || |||  |||   |    |  |  |    |  || |    ||||   | | || |  || |    |   ||| || || |          
AGTTTGGGCTTTAAGCAAGTACTTCCCAAATGTGAAGACTTTTGTTCGTGCCCATGACGTTGATCATGGATTGAATTTAGAAAAGGCTGGAGCTACTGCTgtaatattctcatacctattctagcgttccccgtttgattacctgatggtacaatttcaaaatagtggtagcatt-tggtaaacacattcaagcatctgaa

upper sequence: AT1G01790.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA07G08030.1 (Glycine max), 5'ss of exon 17
TGTTTGGGCTTTGAGCAAGTTTTACCCCAATGTCAAAACTTTTGTCCGTGCTCACGATGTTGTTCATGGTCTTAATCTAGAAAAAGCCGGTGCTACTGCAgtaatactcacagaccccttc-------actctcatc-tagactatagatatgctttgtcaa------tcgtacactaata-atacctcgatc--acaaaaacttttag--------------------------------------------------
 ||||||||| ||||||||   | ||| || || || ||||||||||||||||| ||||||| ||||||  | ||| ||||||| || || ||||| || |||||| ||    |||  |||       | | | ||  | | ||   | |||  |||   ||      |  |  ||||||| |||  | |||    | ||||   |  |                                                  
AGTTTGGGCTCTGAGCAAGCACTTCCCAAACGTGAAGACTTTTGTCCGTGCTCATGATGTTGATCATGGATTGAATTTAGAAAAGGCTGGAGCTACCGCTgtaatattctattaccttttctattatgaatgttatgattgccttatggtataattttggaagtgtttttctttactaatacatatttagatttagccaaaatactctgttaatcttctctgtcttatctctttatctctctgcctcttgcatttgcag

upper sequence: AT1G01790.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 5'ss of exon 16
TGTTTGGGCTTTGAGCAAGTTTTACCCCAATGTCAAAACTTTTGTCCGTGCTCACGATGTTGTTCATGGTCTTAATCTAGAAAAAGCCGGTGCTACTGCAgtaatact-----cacagaccccttcactctcatctagactatagatatgctttgtcaatcgt-acactaataat-----acct-cgatcacaaaaacttttag---------------------------------------------------------------------------------------------
|||||||||  ||||||||| ||  |||||||| ||||| |||||||||||||| ||||||| |||||| |||||| | ||||| || || || || || |||  | |      ||   ||| ||  || |  | ||   | | ||  | ||| | || |  |  || || | ||     | || | |  || ||||||  ||                                                                                              
TGTTTGGGCCCTGAGCAAGTATTTTCCCAATGTGAAAACATTTGTCCGTGCTCATGATGTTGATCATGGCCTTAATTTGGAAAAGGCTGGGGCAACAGCGgtatcattaattttactttccctttttctattctgtaattttttgacct-cttgggcatttattgcattagttattgaaaatctacaactactaaaactaatacctattatcggagtatattttcttagggtttttgtcttcccttctaaatcaccccttgacttttattttgcatcatctgttaaaaaacatacag

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|86083727|gb|DR379486.1|DR379486
EST:     CTCACGATGTTGTTCATGGTCTTAATCTAGAAAAAGCCGGTGCTACTGCA                         GTTGTCCCGGAGACTCTGGAGCCTAGTCTACAGTTGGCAGCTGCTGTTCTT
genomic: CTCACGATGTTGTTCATGGTCTTAATCTAGAAAAAGCCGGTGCTACTGCAgtaatactca ... aaacttttagGTTGTCCCGGAGACTCTGGAGCCTAGTCTACAGTTGGCAGCTGCTGTTCTT
EST: gi|125304694|gb|EL318779.1|EL318779
EST:     CTCACGATGTTGTTCATGGTCTTAATCTAGAAAA-GCCGGTGCTACTGCA                         GTTGTCCCGGAG
genomic: CTCACGATGTTGTTCATGGTCTTAATCTAGAAAAAGCCGGTGCTACTGCAgtaatactca ... aaacttttagGTTGTCCCGGAG