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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattaaatatatatattaaactcttggagattctgtaattatcattagatcatattgatatattaaacctttgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATTTATGAGTGCTTTTATAAGATTGATAAAAGGTGGAAGGAAGTTGGTGATT

Basic information

species Arabidopsis thaliana
transcript AT3G49770.1
intron # 1
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|116394397|gb|EG436989.1|EG436989
EST:     AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACG                         GAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
genomic: AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACGgtgattaaat ... tgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
EST: gi|116384682|gb|EG427274.1|EG427274
EST:     TCAAGGACACG                         GAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
genomic: TCAAGGACACGgtgattaaat ... tgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
EST: gi|116394391|gb|EG436983.1|EG436983
EST:     AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACG                         GAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
genomic: AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACGgtgattaaat ... tgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
EST: gi|116394390|gb|EG436982.1|EG436982
EST:     AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACG                         GAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
genomic: AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACGgtgattaaat ... tgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
EST: gi|116394395|gb|EG436987.1|EG436987
EST:     AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACG                         GAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
genomic: AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACGgtgattaaat ... tgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
EST: gi|116394388|gb|EG436980.1|EG436980
EST:     AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACG                         GAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
genomic: AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACGgtgattaaat ... tgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
EST: gi|116394393|gb|EG436985.1|EG436985
EST:     AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACG                         GAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
genomic: AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACGgtgattaaat ... tgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
EST: gi|116394384|gb|EG436976.1|EG436976
EST:     TCAAGGACACG                         GAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
genomic: TCAAGGACACGgtgattaaat ... tgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
EST: gi|116394398|gb|EG436990.1|EG436990
EST:     AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACG                         GAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAATATT
genomic: AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACGgtgattaaat ... tgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
EST: gi|116394399|gb|EG436991.1|EG436991
EST:     AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACG                         GAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAATATT
genomic: AAAAGTTTGAAGAAAGTATTTGGAATGCAATAGAATACGTCAAGGACACGgtgattaaat ... tgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
EST: gi|116384663|gb|EG427255.1|EG427255
EST:     TCAAGGACACG                         GAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT
genomic: TCAAGGACACGgtgattaaat ... tgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagattctgtaattatcattagatcatattgatatattaaacctttgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATTTATGAGTGCTTTTATAAGATTGATAAAAGGTGGAAGGAAGTTGGTGATT
                          tattgat  putative branch site (score: 3)
                                         cctttgtttt  putative PPT
       tgtaattatcattaga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgattaaatatatatattaaactcttggagattctgtaattatcattagatcatattgatatattaaacctttgttttgtagGAAGGACTTGGTCGTTCCTGTGCTGATCTTCTAGAATATGTTGAAAGTATTTATGAGTGCTTTTATAAGATTGATAAAAGGTGGAAGGAAGTTGGTGATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA