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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctttaaaattaactttaatgtttactaaatcaggaggggaagaacaacttctgtattaatgtctaaaatccgtttgtctttccctaaagtgcttcttggagataaatgaccatgctagttaaaactaaactacttcatcacattttcctattatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAAAAATCTTCCTGACACCAATGAAGAGAGAAGTGACATTGAAGAAAATGGC

Basic information

species Arabidopsis thaliana
transcript AT4G19610.1
intron # 9
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|116458756|gb|EG501348.1|EG501348
EST:     CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA                         AGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
genomic: CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAAgtaagcttta ... attatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
EST: gi|116458749|gb|EG501341.1|EG501341
EST:     CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA                         AGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCNNN
genomic: CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAAgtaagcttta ... attatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
EST: gi|116413076|gb|EG455668.1|EG455668
EST:     CCGGCTGAGGCACGCGCAGCTTTTAAGGGAATGGCATACAAGCGTTACAA                         AGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
genomic: CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAAgtaagcttta ... attatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
EST: gi|116413073|gb|EG455665.1|EG455665
EST:     CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA                         AGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
genomic: CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAAgtaagcttta ... attatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
EST: gi|116413069|gb|EG455661.1|EG455661
EST:     CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA                         AGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
genomic: CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAAgtaagcttta ... attatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
EST: gi|116413075|gb|EG455667.1|EG455667
EST:     CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA                         AGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
genomic: CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAAgtaagcttta ... attatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
EST: gi|116458754|gb|EG501346.1|EG501346
EST:     CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA                         AGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
genomic: CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAAgtaagcttta ... attatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
EST: gi|116413074|gb|EG455666.1|EG455666
EST:     CCGGCTGAGGCACGCGCAGCTTTTAAGGGAATGGCATACAAGCGTTACAA                         AGATGCTCCCTTGTATTTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
genomic: CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAAgtaagcttta ... attatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
EST: gi|116458748|gb|EG501340.1|EG501340
EST:     CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA                         AGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCNNN
genomic: CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAAgtaagcttta ... attatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
EST: gi|116458745|gb|EG501337.1|EG501337
EST:     CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA                         AGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCNNN
genomic: CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAAgtaagcttta ... attatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
EST: gi|116413072|gb|EG455664.1|EG455664
EST:     CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA                         AGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCNNNN
genomic: CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAAgtaagcttta ... attatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA
EST: gi|116413070|gb|EG455662.1|EG455662
EST:     CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA                         AGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCNNNN
genomic: CCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAAgtaagcttta ... attatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgaccatgctagttaaaactaaactacttcatcacattttcctattatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAAAAATCTTCCTGACACCAATGAAGAGAGAAGTGACATTGAAGAAAATGGC
                  aactaaa  putative branch site (score: 2)
                                      ttttcctatt  putative PPT
           tagttaaaactaaa  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagctttaaaattaactttaatgtttactaaatcaggaggggaagaacaacttctgtattaatgtctaaaatccgtttgtctttccctaaagtgcttcttggagataaatgaccatgctagttaaaactaaactacttcatcacattttcctattatcacagAGATGCTCCCTTGTATCTGGAGTGGGCTCCTGGAAATATTCTTGAGCCAAAAAATCTTCCTGACACCAATGAAGAGAGAAGTGACATTGAAGAAAATGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA