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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagactactctttctctgttttcttgaacacagagatgagtttcacggcaaatgttcacagtctttatgcaatttgtagGTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATACACCATCATCAG

Basic information

species Arabidopsis thaliana
transcript AT2G37660.1
intron # 4
splice site 3'
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|86076409|gb|DR372166.1|DR372166
EST:     GAACAAACATTAATCACCCTCTCAATAGTATTGGCAATGCTAACATTCTG                         GTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC
genomic: GAACAAACATTAATCACCCTCTCAATAGTATTGGCAATGCTAACATTCTGgtgagactac ... caatttgtagGTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC
EST: gi|125081331|gb|EL142595.1|EL142595
EST:     TAGTATTGGCAATGCTAACATTCTG                         GTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC
genomic: TAGTATTGGCAATGCTAACATTCTGgtgagactac ... caatttgtagGTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC
EST: gi|47831378|gb|CK121062.1|CK121062
EST:     GAACAAACATTAATCACCCTCTCAATAGTATTGGCAATGCTAACATTCTG                         GTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC
genomic: GAACAAACATTAATCACCCTCTCAATAGTATTGGCAATGCTAACATTCTGgtgagactac ... caatttgtagGTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC
EST: gi|124973098|gb|EL046753.1|EL046753
EST:     CAAACATTAATCACCCTCTCAATAGTATTGGCAATGCTAACATTCTG                         GTCTGGAAGAGAAAGGCTGAGCAACACTTGGCTGATTCCGGTATTCCATAC
genomic: CAAACATTAATCACCCTCTCAATAGTATTGGCAATGCTAACATTCTGgtgagactac ... caatttgtagGTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC
EST: gi|164005749|gb|ES205891.1|ES205891
EST:     TTAATCACCCTCTCAATAGTATTGGCAATGCTAACATTCTG                         GTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC
genomic: TTAATCACCCTCTCAATAGTATTGGCAATGCTAACATTCTGgtgagactac ... caatttgtagGTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC
EST: gi|164096960|gb|ES159675.1|ES159675
EST:     GAACAAACATTAATCACCCTCTCAATAGTATTGGCAATGCTAACATTCTG                         GTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATA
genomic: GAACAAACATTAATCACCCTCTCAATAGTATTGGCAATGCTAACATTCTGgtgagactac ... caatttgtagGTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATA
EST: gi|125108071|gb|EL161141.1|EL161141
EST:     ATTGGCAATGCTAACATTCTG                         GTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC
genomic: ATTGGCAATGCTAACATTCTGgtgagactac ... caatttgtagGTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC
EST: gi|124937599|gb|EL014339.1|EL014339
EST:     CTAACATTCTG                         GTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC
genomic: CTAACATTCTGgtgagactac ... caatttgtagGTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaacacagagatgagtttcacggcaaatgttcacagtctttatgcaatttgtagGTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATACACCATCATCAG
                                              aatttgta  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagactactctttctctgttttcttgaacacagagatgagtttcacggcaaatgttcacagtctttatgcaatttgtagGTCTGGAAGAGAAAGGCTGAGCAATACTTGGCTGATTCCGGTATTCCATACACCATCATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT