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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTCCAGCTCTTACTCTGAAGACAGCTCTTGTTTCAATTCAGGCTTTACTCTCTGCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAGgttcttcttctacatcaccttaatcatcttcgggttttttcccccttttccttagtcattttgaagcaatccgttacctctgatgtttacag

Basic information

species Arabidopsis thaliana
transcript AT5G50870.1
intron # 3
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|164192388|gb|ES024432.1|ES024432
EST:     GCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAG                         TACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
genomic: GCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
EST: gi|164198762|gb|EL987189.1|EL987189
EST:     TCTCTGCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAG                         TACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTAC
genomic: TCTCTGCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTAC
EST: gi|164175828|gb|EL981588.1|EL981588
EST:     GTTGTAGCTGAACAG                         TACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
genomic: GTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
EST: gi|86075428|gb|DR371185.1|DR371185
EST:     TCTCTGCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAG                         TACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
genomic: TCTCTGCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
EST: gi|116484589|gb|EG527181.1|EG527181
EST:     TCTTTGCCCCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAG                         TACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
genomic: TCTCTGCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
EST: gi|116484588|gb|EG527180.1|EG527180
EST:     TCTCTGCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAG                         TACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
genomic: TCTCTGCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
EST: gi|164084271|gb|ES098425.1|ES098425
EST:     TGCTGTTGTAGCTGAACAG                         TACATGAAGAACTATCAAGTGTTTTGTATCAACAGCTCGTTACTGGACTGA
genomic: TGCTGTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACATGAAGAACTATCAAGTG-TTTGTATCAACAGCTCGTTACTGGACTGA
EST: gi|164237093|gb|EL968837.1|EL968837
EST:     GTTGTAGCTGAACAG                         TACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
genomic: GTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
EST: gi|164063221|gb|EL971077.1|EL971077
EST:     GAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAG                         TACATGAAGAACTATCAAGNGTTTGTATCAACAGCTCGTTACTGGACTGAA
genomic: GAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
EST: gi|164217382|gb|ES063454.1|ES063454
EST:     GAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAG                         TACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
genomic: GAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
EST: gi|125274166|gb|EL288251.1|EL288251
EST:     TGTTGTAGCTGAACAG                         TACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
genomic: TGTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
EST: gi|164208348|gb|EL980956.1|EL980956
EST:     GAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAG                         TACATAGAAGAACTAT
genomic: GAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACAT-GAAGAACTAT
EST: gi|86081980|gb|DR377739.1|DR377739
EST:     TCTCTGCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAG                         TACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA
genomic: TCTCTGCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAGgttcttcttc ... atgtttacagTACATGAAGAACTATCAAGTGTTTGTATCAACAGCTCGTTACTGGACTGAA

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTCCAGCTCTTACTCTGAAGACAGCTCTTGTTTCAATTCAGGCTTTACTCTCTGCACCTGAGCCCAAAGACCCTCAAGATGCTGTTGTAGCTGAACAGgttcttcttctacatcaccttaatcatcttcgggttttttcccccttttccttagtcattttgaagcaatccgttacctctgatgtttacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA