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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactaaaaaaaaaacagaacctacacaacttcaccatggtcacagctacgtagaactcagtttctgtaatatgtcattgtcataacctagTTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCAAACCAGCCTCCACGCGGAGGAGGACAGATCAGTCATTTGCTTCATCAGC

Basic information

species Arabidopsis thaliana
transcript AT4G32570.1
intron # 2
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|86044475|gb|DR340230.1|DR340230
EST:     ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAG                         TTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCA
genomic: ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAGgtaactaaaa ... cataacctagTTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCA
EST: gi|86044480|gb|DR340235.1|DR340235
EST:     ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAG                         TTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCA
genomic: ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAGgtaactaaaa ... cataacctagTTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCA
EST: gi|19874833|gb|AU235664.1|AU235664
EST:     ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAG                         TTGCTTANAAACNGACCTGGAAGCTTCT
genomic: ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAGgtaactaaaa ... cataacctagTTGCTTAGAAACGGACCTGGAAGCTTCT
EST: gi|116469033|gb|EG511625.1|EG511625
EST:     ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAG                         TTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCA
genomic: ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAGgtaactaaaa ... cataacctagTTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCA
EST: gi|86044472|gb|DR340227.1|DR340227
EST:     ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAG                         TTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCA
genomic: ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAGgtaactaaaa ... cataacctagTTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCA
EST: gi|86044473|gb|DR340228.1|DR340228
EST:     ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAG                         TTGCTTANAAACGGACCTGGAAGCTTCTCCATGAATG
genomic: ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAGgtaactaaaa ... cataacctagTTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATG
EST: gi|116469032|gb|EG511624.1|EG511624
EST:     ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAG                         TTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCA
genomic: ATTCTCACTTCACGACTCAGGAGCACCCAGAGACTCTGCATTGGTCCAAGgtaactaaaa ... cataacctagTTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggtcacagctacgtagaactcagtttctgtaatatgtcattgtcataacctagTTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCAAACCAGCCTCCACGCGGAGGAGGACAGATCAGTCATTTGCTTCATCAGC
                                            tcataac  putative branch site (score: 2)
                             tgtaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactaaaaaaaaaacagaacctacacaacttcaccatggtcacagctacgtagaactcagtttctgtaatatgtcattgtcataacctagTTGCTTAGAAACGGACCTGGAAGCTTCTCCATGAATGTGAATCCTTTGGCAAACCAGCCTCCACGCGGAGGAGGACAGATCAGTCATTTGCTTCATCAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA