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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtttaccttgatgatctctgagattagctatgttatgttttggagttcttgttaaacaattgaagtcttggtgttggaatgaaaagttgaggtctagtttgctacataatgtgctatgatcgtcttgttgcagtatcgatgaattaaagcactgagtcttatctttgtgtagCCTCTAGATACAGCTTCATCAAGGATGCAAACTAGTGAGTTTGGAGAATCAAAAGGGTTGTGGAAGACCTTAACAGAGGGTTCATGGGCAGACGCATTTG

Basic information

species Arabidopsis thaliana
transcript AT3G05290.1
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|164228051|gb|EL970507.1|EL970507
EST:     TGCTGCTGCTGCTGGGGCTTGTACTTCTGTCTTAATTCAG                         CCTCTAGATACAGC
genomic: TGCTGCTGCTGCTGGGGCTTGTACTTCTGTCTTAATTCAGgtacgtttac ... ctttgtgtagCCTCTAGATACAGC
EST: gi|47830192|gb|CK119876.1|CK119876
EST:     ATTTGCTCATTGCTGCTGCTGCTGGGGCTTGTACTTCTGTCTTAATTCAG                         CCTCTAGATACAGCTTCATCAAGGATGCAAACTAGTGAGTTTGGAGAATCA
genomic: ATTTGCTCATTGCTGCTGCTGCTGGGGCTTGTACTTCTGTCTTAATTCAGgtacgtttac ... ctttgtgtagCCTCTAGATACAGCTTCATCAAGGATGCAAACTAGTGAGTTTGGAGAATCA
EST: gi|86031626|gb|DR327379.1|DR327379
EST:     ATTTGCTCATTGCTGMTGCTGCTGGGGCTTGTACTTCTGTCTTAATTCAG                         CCTCTAGATACAGCTTCATCAAGGATGCAAACTAGTGAGTTTG
genomic: ATTTGCTCATTGCTGCTGCTGCTGGGGCTTGTACTTCTGTCTTAATTCAGgtacgtttac ... ctttgtgtagCCTCTAGATACAGCTTCATCAAGGATGCAAACTAGTGAGTTTG
EST: gi|86031625|gb|DR327378.1|DR327378
EST:     TTTTGCTCATTGCTGCTGCTGCTGGGGCTTGTACTTCTGTCTTAATTCAG                         CCTCTAGATACAGCTTCATCAAGGATGCAA-CTAGTGAGTTT
genomic: TTT-GCTCATTGCTGCTGCTGCTGGGGCTTGTACTTCTGTCTTAATTCAGgtacgtttac ... ctttgtgtagCCTCTAGATACAGCTTCATCAAGGATGCAAACTAGTGAGTTT
EST: gi|301501272|gb|HO206812.1|HO206812
EST:     ATTTGCTCATCGCTGCTGCTGCTGGGGCTTGTACTTCTGTCTTAATTCAG                         CCTCTAGATACAGCTTCATCAAGGATGCAAACTAGTGAGTTTGGAGAATCA
genomic: ATTTGCTCATTGCTGCTGCTGCTGGGGCTTGTACTTCTGTCTTAATTCAGgtacgtttac ... ctttgtgtagCCTCTAGATACAGCTTCATCAAGGATGCAAACTAGTGAGTTTGGAGAATCA
EST: gi|86031627|gb|DR327380.1|DR327380
EST:     ATTTGCTCMTTGCTGCTGCTGCTGGGGCTTGTACTTCTGTCTTAATTCAG                         CCTCTAGATACAGCTTCATCAAGGATG
genomic: ATTTGCTCATTGCTGCTGCTGCTGGGGCTTGTACTTCTGTCTTAATTCAGgtacgtttac ... ctttgtgtagCCTCTAGATACAGCTTCATCAAGGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatcgtcttgttgcagtatcgatgaattaaagcactgagtcttatctttgtgtagCCTCTAGATACAGCTTCATCAAGGATGCAAACTAGTGAGTTTGGAGAATCAAAAGGGTTGTGGAAGACCTTAACAGAGGGTTCATGGGCAGACGCATTTG
                                       tcttatcttt  CT-rich tract
                     atgaattaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgtttaccttgatgatctctgagattagctatgttatgttttggagttcttgttaaacaattgaagtcttggtgttggaatgaaaagttgaggtctagtttgctacataatgtgctatgatcgtcttgttgcagtatcgatgaattaaagcactgagtcttatctttgtgtagCCTCTAGATACAGCTTCATCAAGGATGCAAACTAGTGAGTTTGGAGAATCAAAAGGGTTGTGGAAGACCTTAACAGAGGGTTCATGGGCAGACGCATTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA