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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttcttcttattcccttgtaagactcataattgagtatagctaaatatgaagcacatgctctgtactaagcgatacctccatttggggttgaatcttttatagGTGATCTGTGACCACTTGAGCTTGGGAGTGAAGACCGGTTTACCGTATATCTACCACAGCAAAGCGAGCAACCCTTTTGTTAACCTGAAGAAGGAATACA

Basic information

species Arabidopsis thaliana
transcript AT5G15650.1
intron # 3
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|164179200|gb|ES067998.1|ES067998
EST:     TGGTCGTTACGACGATATGTGGGCTGGTTGGTGCATCAAG                         GTGATCTGTGACCACTTGAGCT
genomic: TGGTCGTTACGACGATATGTGGGCTGGTTGGTGCATCAAGgtaatttctt ... tcttttatagGTGATCTGTGACCACTTGAGCT
EST: gi|164237601|gb|ES002549.1|ES002549
EST:     CGATATGTGGGCTGGTTGGTGCATCAAG                         GTGATCTGTGACCACTTGAGCTTGGGAGTGAAGACCGGTTTACCGTATATC
genomic: CGATATGTGGGCTGGTTGGTGCATCAAGgtaatttctt ... tcttttatagGTGATCTGTGACCACTTGAGCTTGGGAGTGAAGACCGGTTTACCGTATATC
EST: gi|124812700|gb|EH897566.1|EH897566
EST:     TGGTTGGTGCATCAAG                         GTGATCTGTGACCACTTGAGCTTGGGAGTGAAGACCGGTTTACCGTATATC
genomic: TGGTTGGTGCATCAAGgtaatttctt ... tcttttatagGTGATCTGTGACCACTTGAGCTTGGGAGTGAAGACCGGTTTACCGTATATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagcacatgctctgtactaagcgatacctccatttggggttgaatcttttatagGTGATCTGTGACCACTTGAGCTTGGGAGTGAAGACCGGTTTACCGTATATCTACCACAGCAAAGCGAGCAACCCTTTTGTTAACCTGAAGAAGGAATACA
                                             tcttttat  CT-rich tract
 ttgaatcttttata  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatttcttcttattcccttgtaagactcataattgagtatagctaaatatgaagcacatgctctgtactaagcgatacctccatttggggttgaatcttttatagGTGATCTGTGACCACTTGAGCTTGGGAGTGAAGACCGGTTTACCGTATATCTACCACAGCAAAGCGAGCAACCCTTTTGTTAACCTGAAGAAGGAATACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA