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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacttctctctatttagttttttattatatttgacagtcattgaattatgtaatcaaacaagtgttgcttactatggttctcatccttccagAGTGTCATTTACATTCCAAAACCAACTTGGGGGAACCATCCCAAAGTTTTCAACTTGGCAGGCTTGTCTGTGGAGTATTTCCGCTACTATGATCCTGCAA

Basic information

species Arabidopsis thaliana
transcript AT5G19550.1
intron # 5
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|116439194|gb|EG481786.1|EG481786
EST:     CTGGTTCGTTGAGAGTTGGGGCTGAGTTTCTCAAAACACACTACCACCAA                         AGTGTCATTTACATTCCAAAACCAACTTGGGGGAACCATCCCAAAGTTTTC
genomic: CTGGTTCGTTGAGAGTTGGGGCTGAGTTTCTCAAAACACACTACCACCAAgtaaacttct ... atccttccagAGTGTCATTTACATTCCAAAACCAACTTGGGGGAACCATCCCAAAGTTTTC
EST: gi|124934191|gb|EL011282.1|EL011282
EST:     CTGGTTCGTTGAGAGTTGGGGCTGAGTTTCTCAAAACACACTACCACCAA                         AGTGTCATTTACATTCCAAAGCCAACTTGGGGGAACCA
genomic: CTGGTTCGTTGAGAGTTGGGGCTGAGTTTCTCAAAACACACTACCACCAAgtaaacttct ... atccttccagAGTGTCATTTACATTCCAAAACCAACTTGGGGGAACCA
EST: gi|116439128|gb|EG481720.1|EG481720
EST:     CTGGTTCGTTGAGAGTTGGGGCTGAGTTTCTCAAAACACACTACCACCAA                         AGTGTCATTTACATTCCAAAACCAACTTGGGGGAACCATCCCAAAGTTTTC
genomic: CTGGTTCGTTGAGAGTTGGGGCTGAGTTTCTCAAAACACACTACCACCAAgtaaacttct ... atccttccagAGTGTCATTTACATTCCAAAACCAACTTGGGGGAACCATCCCAAAGTTTTC
EST: gi|116442567|gb|EG485159.1|EG485159
EST:     CTGGTTCGTTGAGAGTTGGGGCTGAGTTTCTCAAAACACACTACCACCAA                         AGTGTCATTTACATTCCAAAACCAACTTGGGGGAACCATCCCAAAGTTTTC
genomic: CTGGTTCGTTGAGAGTTGGGGCTGAGTTTCTCAAAACACACTACCACCAAgtaaacttct ... atccttccagAGTGTCATTTACATTCCAAAACCAACTTGGGGGAACCATCCCAAAGTTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattgaattatgtaatcaaacaagtgttgcttactatggttctcatccttccagAGTGTCATTTACATTCCAAAACCAACTTGGGGGAACCATCCCAAAGTTTTCAACTTGGCAGGCTTGTCTGTGGAGTATTTCCGCTACTATGATCCTGCAA
                            tgcttac  putative branch site (score: 2)
                                        ttctcatccttcc  putative PPT
      aattatgtaatcaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaacttctctctatttagttttttattatatttgacagtcattgaattatgtaatcaaacaagtgttgcttactatggttctcatccttccagAGTGTCATTTACATTCCAAAACCAACTTGGGGGAACCATCCCAAAGTTTTCAACTTGGCAGGCTTGTCTGTGGAGTATTTCCGCTACTATGATCCTGCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG