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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactagatttcacacctatatgtgattgtatgcaatatatttgcatacatatgattgacaatttccattttgtagCTTGCTCTTAAAGCCGGTGTTTTCTATGACAAAGTGTCTAATATGACCATATGGGGAAATCACTCCACGACTCAG

Basic information

species Arabidopsis thaliana
transcript AT5G58330.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G58330.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os08g44810.1 (Oryza sativa), 3'ss of exon 7
gtactagatttcacacc----tatatgtgat---tgtatgcaatatatttgcatacatatgattgacaatttccattttgtagCTTGCTCTTAAAGCCGGTGTTTTCTATGACAAAGTGTCTAATATGACCATATGGGGAAATCACTCCACGACTCAG
||||| ||  | | | |    ||| ||||||   | | ||   | |  || || ||| || ||||   | ||   |||||||||| || || ||||| ||||| || ||||||||||| || |||||||| || ||||| || ||||| || ||||||
gtacttgacgttaaatcgtagtatttgtgatgtatttttgtggttttatttcaaacaaataattgg--acttgttttttgtagCTGGCACTAAAAGCGGGTGTATTTTATGACAAAGTATCAAATATGACTATTTGGGGGAACCACTCAACAACTCAG
















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|125200072|gb|EL215026.1|EL215026
EST:     TAGACGAAAATCGTGCCAAATGCCAG                         CTTGCTCTTAAAGCCGGTGTTTTCTATGACAAAGTGTCTAATATGACCATA
genomic: TAGACGAAAATCGTGCCAAATGCCAGgtactagatt ... cattttgtagCTTGCTCTTAAAGCCGGTGTTTTCTATGACAAAGTGTCTAATATGACCATA
EST: gi|124934868|gb|EL011900.1|EL011900
EST:     GAAAATCGTGCCAAATGCCAG                         CTTGCTCTTAAAGCCGGTGTTTTCTATGACAAAGTGTCTAATATGACCATA
genomic: GAAAATCGTGCCAAATGCCAGgtactagatt ... cattttgtagCTTGCTCTTAAAGCCGGTGTTTTCTATGACAAAGTGTCTAATATGACCATA
EST: gi|124722366|gb|EH813768.1|EH813768
EST:     CATGCCCTCACGAGGTTAGACGAAAATCGTGCCAAATGCCAG                         CTTGCTCTTAAAGCCGGTGTTTTCTATGACAAAGTGTCTAATATGACCATA
genomic: CATGCCCTCACGAGGTTAGACGAAAATCGTGCCAAATGCCAGgtactagatt ... cattttgtagCTTGCTCTTAAAGCCGGTGTTTTCTATGACAAAGTGTCTAATATGACCATA
EST: gi|116454058|gb|EG496650.1|EG496650
EST:     AGAACTTCCATGCCCTCACGAGGTTAGACGAAAATCGTGCCAAATGCCAG                         CTTGCTCTTAAAGCCGGTGTTTTCTATGACAAAGTGTCTAATATGACCATA
genomic: AGAACTTCCATGCCCTCACGAGGTTAGACGAAAATCGTGCCAAATGCCAGgtactagatt ... cattttgtagCTTGCTCTTAAAGCCGGTGTTTTCTATGACAAAGTGTCTAATATGACCATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgattgtatgcaatatatttgcatacatatgattgacaatttccattttgtagCTTGCTCTTAAAGCCGGTGTTTTCTATGACAAAGTGTCTAATATGACCATATGGGGAAATCACTCCACGACTCAG
                                gattgac  putative branch site (score: 3)
                                         tttccatttt  putative PPT
        tatgcaatatattt  TA-rich tract