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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttttccaaatcttgaatcatctgctttctgaattcctcatggaagcatactggttcttctgttattaagggttatgggctcttatattttacgttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCTGGGCTACGAG

Basic information

species Arabidopsis thaliana
transcript AT1G08110.2
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|86058486|gb|DR354243.1|DR354243
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTWTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86058484|gb|DR354241.1|DR354241
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86058487|gb|DR354244.1|DR354244
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86042017|gb|DR337772.1|DR337772
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTAGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86058483|gb|DR354240.1|DR354240
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86042021|gb|DR337776.1|DR337776
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86058480|gb|DR354237.1|DR354237
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86058481|gb|DR354238.1|DR354238
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86079248|gb|DR375005.1|DR375005
EST:     GCTAGTCTTGACTTTTACTCACGTGTGCT-GGGATGTT                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: GCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86058489|gb|DR354246.1|DR354246
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86058490|gb|DR354247.1|DR354247
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|301501106|gb|HO206646.1|HO206646
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|152035076|gb|BP843687.2|BP843687
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86058479|gb|DR354236.1|DR354236
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86058488|gb|DR354245.1|DR354245
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86058485|gb|DR354242.1|DR354242
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|86058491|gb|DR354248.1|DR354248
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
EST: gi|116447688|gb|EG490280.1|EG490280
EST:     AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTC                         ATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT
genomic: AAGGACCCTAAGGCTAGTCTTGACTTTTACTCACGTGTGCTGGGGATGTCgtaagttttt ... gttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactggttcttctgttattaagggttatgggctcttatattttacgttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCTGGGCTACGAG
                                              ttattcc  CT-rich tract
                                  ttatattttacgttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttttttccaaatcttgaatcatctgctttctgaattcctcatggaagcatactggttcttctgttattaagggttatgggctcttatattttacgttattccagATTGCTGAAGAGGCTGGATTTCTCTGAGATGAAATTTAGTTTGTACTTCCTGGGCTACGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG