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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaaaactctcagctccgtttctgatccatcgcctgaaaattccaaataatcgaagcctgagagaatttagcgtgattcattatgaaatttttcttgctctatttagtttttgttgaagttgtgttagtgtagttgaagattgatatgtttaagctcgaatgtgataactagGGGATGTGAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAATTGAAGATCTTGTTCAGAGGAGTTGAGAGAGATGATGCTGAACAATTGCA

Basic information

species Arabidopsis thaliana
transcript AT3G51780.1
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|86044251|gb|DR340006.1|DR340006
EST:     TCATGGCTCATCGCACCACGATCTTCATATTTCTGCTCACGCCACTTTCG                         GGGATGTAAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAAT
genomic: TCATGGCTCATCGCACCACGATCTTCATATTTCTGCTCACGCCACTTTCGgtaacaaaac ... tgataactagGGGATGTGAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAAT
EST: gi|86044248|gb|DR340003.1|DR340003
EST:     TCATGGCTCATCGCACCACGATCTTCATATTTCTGCTCACGCCACTTTCG                         GGGATGTAAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAAT
genomic: TCATGGCTCATCGCACCACGATCTTCATATTTCTGCTCACGCCACTTTCGgtaacaaaac ... tgataactagGGGATGTGAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAAT
EST: gi|86044250|gb|DR340005.1|DR340005
EST:     TCATGGCTCATCGCACCACGATCTTCATATTTCTGCTCACGCCACTTTCG                         GGGATGTAAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAAT
genomic: TCATGGCTCATCGCACCACGATCTTCATATTTCTGCTCACGCCACTTTCGgtaacaaaac ... tgataactagGGGATGTGAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAAT
EST: gi|86024173|gb|DR319926.1|DR319926
EST:     TCATGGCTCATCGCACCACGATCTTCATATTTCTGCTCACGCCACTTTCG                         GGGATGTGAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAAT
genomic: TCATGGCTCATCGCACCACGATCTTCATATTTCTGCTCACGCCACTTTCGgtaacaaaac ... tgataactagGGGATGTGAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAAT
EST: gi|86044249|gb|DR340004.1|DR340004
EST:     TCATGGCTCATCGCACCACGATCTTCATATTTCTGCTCACGCCACTTTCG                         GGGATGTAAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAAT
genomic: TCATGGCTCATCGCACCACGATCTTCATATTTCTGCTCACGCCACTTTCGgtaacaaaac ... tgataactagGGGATGTGAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAAT
EST: gi|86044254|gb|DR340009.1|DR340009
EST:     TCATGGCTCATCGCACCACGATCTTCATATTTCTGCTCACGCCACTTTCG                         GGGATGTAAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAAT
genomic: TCATGGCTCATCGCACCACGATCTTCATATTTCTGCTCACGCCACTTTCGgtaacaaaac ... tgataactagGGGATGTGAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttgtgttagtgtagttgaagattgatatgtttaagctcgaatgtgataactagGGGATGTGAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAATTGAAGATCTTGTTCAGAGGAGTTGAGAGAGATGATGCTGAACAATTGCA
                     gattgat  putative branch site (score: 4)
                      attgatatgtttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacaaaactctcagctccgtttctgatccatcgcctgaaaattccaaataatcgaagcctgagagaatttagcgtgattcattatgaaatttttcttgctctatttagtttttgttgaagttgtgttagtgtagttgaagattgatatgtttaagctcgaatgtgataactagGGGATGTGAAGAAAGCTCTTGTTCAGAAAACTGGATTGGAAGCTAGTGAATTGAAGATCTTGTTCAGAGGAGTTGAGAGAGATGATGCTGAACAATTGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG