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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAACAACCGAGATTTTCCAAGGCCTTTTCACGGTGGCTTGAATCCATCATCTTTCATTCCACCTTATGAGCCTTCCTATCAATATAGACGAAGACAAAGgtacaacaaaacacattctcatagtgaaacaaaaaaaaaatattcctatcaaaagtaaaataaaaataagctgtttattgtagcattatttcaaaaatac...

Basic information

species Arabidopsis thaliana
transcript AT2G39830.1
intron # 4
splice site 5'
intron type U2

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|116398785|gb|EG441377.1|EG441377
EST:     CTTTCGTTCCACC-TATAAAGCCTTCCTATCAATATAGACGAAGACAAAG                         AATATGT-GCGGGTTGCAATAGCGATGTTGGATCGGGGAACTATCTAGGAT
genomic: CTTTCATTCCACCTTAT-GAGCCTTCCTATCAATATAGACGAAGACAAAGgtacaacaaa ... tttttagcagAATATGTGGC-GGTTGCAATAGCGATATTGGATCGGGGAACTATCTAGGAT
EST: gi|116398788|gb|EG441380.1|EG441380
EST:     TCTTTCATTCCACCTTATGAGCCTTCCTATCAATATAGACGAAGACAAAA                         AATATGTGGTGGTTGCAATAGCGATATTGGATCGGGGAACTATCTAGGATG
genomic: TCTTTCATTCCACCTTATGAGCCTTCCTATCAATATAGACGAAGACAAAGgtacaacaaa ... tttttagcagAATATGTGGCGGTTGCAATAGCGATATTGGATCGGGGAACTATCTAGGATG
EST: gi|116398790|gb|EG441382.1|EG441382
EST:     TCTTTCATTCCACCTTATGAGCCTTCCTATCAATATAGACGAAGACAAAG                         AATATGTGGCGGTTGCAATAGCGATATTGGATCGGGGAACTATCTAGGATG
genomic: TCTTTCATTCCACCTTATGAGCCTTCCTATCAATATAGACGAAGACAAAGgtacaacaaa ... tttttagcagAATATGTGGCGGTTGCAATAGCGATATTGGATCGGGGAACTATCTAGGATG
EST: gi|116398778|gb|EG441370.1|EG441370
EST:     CAATATAGACGAAGACAAAG                         AATATGTGGCGGTTGCAATAGCGATATTGGATCGGGGAACTATCTAGGATG
genomic: CAATATAGACGAAGACAAAGgtacaacaaa ... tttttagcagAATATGTGGCGGTTGCAATAGCGATATTGGATCGGGGAACTATCTAGGATG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAACAACCGAGATTTTCCAAGGCCTTTTCACGGTGGCTTGAATCCATCATCTTTCATTCCACCTTATGAGCCTTCCTATCAATATAGACGAAGACAAAGgtacaacaaaacacattctcatagtgaaacaaaaaaaaaatattcctatcaaaagtaaaataaaaataagctgtttattgtagcattatttcaaaaatac

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaaacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaaagta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaa