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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTCTTCTTCAAGCAAGAAATGGAGCTTTCATTGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTTAACGTTGTTGCAgtaagtagtatgcttccccaaaaatcgttccctctttttttctctaaatgactcgttgatggcttccttttgcatttccttgtccag

Basic information

species Arabidopsis thaliana
transcript AT5G67560.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G67560.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os03g10370.1 (Oryza sativa), 5'ss of exon 2
CCTCTTCTTCAAGCAAGAAATGGAGCTTTCATTGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTTAACGTTGTTGCAgtaagtagtatgcttccccaaaaatcgttccctctttttttctctaaatgactcgttgatggcttccttttgcatttccttgtccag
 || || ||||||||||| ||||||||||| |||||||| ||||||||||| || || ||||| ||||| || ||  |||| |||||||  | | |||   |  | |  ||| ||   |   |     ||||| |  |  |||| |  |  |   || | |        
TCTTTTTTTCAAGCAAGAGATGGAGCTTTCCTTGATAGGGCTTCAAAATGCTGGGAAAACATCGCTTGTGAATGTCATTGCTgtaagtatca-gtttcttaattatttattcacttgctgaattat--aatgatttctc-atggatcaccatgtaatctgcag------

upper sequence: AT5G67560.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G007188_T01 (Zea mays), 5'ss of exon 2
CCTCTTCTTCAAGCAAGAAATGGAGCTTTCATTGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTTAACGTTGTTGCAgtaagtagtatgcttccccaaaaatcgttccctctttttttctctaaatgactcgttgatggcttccttttgcattt-ccttgtccag
|||||||||||||||||| ||||||||||||||| |||| || |||||||| || || ||||||||||| |||    |||| ||||||| ||  | | |        |   || | |  |        |||||    |   |  | | | |   ||| |   || | |||
CCTCTTCTTCAAGCAAGAGATGGAGCTTTCATTGGTAGGGCTCCAAAATGCTGGGAAAACATCACTTGTGAACTCCATTGCTgtaagtattaatcattcttttcttaccacccatatactggatgtataatgaaatatatgtatcattcataaacatgtattttttgcag

upper sequence: AT5G67560.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G081622_T01 (Zea mays), 5'ss of exon 2
CCTCTTCTTCAAGCAAGAAATGGAGCTTTCATTGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTTAACGTTGTTGCAgtaagtagtatgc-ttccccaaaaatcgttccctctttttttctctaaatgactcgttgatggcttccttttgcatttccttgtccag
|||||||||||||||||| ||||||||||| |||||||| || |||||||| || || || |||||||| |||  | |||| ||||||| || || |||       | |  ||      |   | | | | |||    |   |  | |   |   ||| |  || | |||
CCTCTTCTTCAAGCAAGAGATGGAGCTTTCCTTGATAGGGCTCCAAAATGCTGGGAAAACGTCACTTGTGAACTCTATTGCTgtaagtattaggcattcttttggtaccactcatatactggatgtttga-tgaaatatatttatccttggtaaacatgtatttttgcag

upper sequence: AT5G67560.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv03s0091g00970.t01 (Vitis vinifera), 5'ss of exon 2
CCTCTTCTTCAAGCAAGAAATGGAGCTTTCATTGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTTAACGTTGTTGCAgtaagtagtatgcttccccaaaa-------------atcgttccctctttttttctctaaatg---actcgttgatggcttccttt-tgcatttccttgtccag
|||||| ||||| |||||||||||||| || |||||||| ||||| ||||||||||| ||||||||||| || ||| ||||||||||||   | | | |  ||               || ||| ||   |  ||||| |   |    ||| || | |   ||||||| || || |  ||| | ||
CCTCTTTTTCAAACAAGAAATGGAGCTATCTTTGATAGGCCTTCAGAATGCAGGAAAAACATCACTTGTAAATGTTATTGCAgtaagtaaagttcatgcaaaatgtgagttttcttttattgtttccctctcctttctttggtttggcactggtggctaaattcctttgtggatcttgttg-caag

upper sequence: AT5G67560.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: EFJ23242 (Selaginella moellendorffii), 5'ss of exon 2
CCTCTTCTTCAAGCAAGAAATGGAGCTTTCATTGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTTAACGTTGTTGCAgtaagtagtatgcttccccaaaaatcgttccctctttttttctctaaatgactcgttgatggcttccttttgcatttccttgtccag
|||||||||||||||||| |||||| | ||| | |||||||| ||||| || || ||||| || ||||| |||    | || ||||||   | | |  | |        ||  |||  | |||| || |     | |||   |  || ||                   
CCTCTTCTTCAAGCAAGAGATGGAGTTATCAGTAATAGGACTACAAAAGGCTGGCAAGACGTCCCTTGTCAACTCCATCGCTgtaagttccaagttctctc--------ttttctcgctctttcgctga-----tggttatcgattttctag-----------------

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|164145622|gb|EL972669.1|EL972669
EST:     TGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTTAACGTTGTTGCA                         ACCGGTGGATACAGTGAAGACATGATCCCTACG
genomic: TGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTTAACGTTGTTGCAgtaagtagta ... ccttgtccagACCGGTGGATACAGTGAAGACATGATCCCTACG