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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actttgcttcgttgttttgtagaaccatggtcctttggtcctgatttattgtctgttggtcagcatatcaaaatgtatttgacctatatcactttttcagGAAGTATATGAGCAACAAAAAGAGCTTATATTAAACGGAGAAAAAATTGTTCTTTCCACTCTAGGCTTTGACCTCAATGTTTATCATCCTTATAAACCCC

Basic information

species Arabidopsis thaliana
transcript AT5G45190.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G45190.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 3
actttgcttcgttgttttgtagaaccatggtcctttggtcctgatttattgtctgttggtcagcatatcaaaatgtatttgacctatatcactttttcagGAAGTATATGAGCAACAAAAAGAGCTTATATTAAACGGAGAAAAAATTGTTCTTTCCACTCTAGGCTTTGACCTCAATGTTTATCATCCTTATAAACCCC
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tttttttcccagtgtggtttgatgtttgatgcgattgaagatatatgaattttatgtaattatcatttgttttggtcattgatcggtgtccacaatgcagGAAGTATATGAGCAACAAAAAGAGCTAATTTTAATTGGAGAGAGGGTTGTACTTGCAACTCTAGGTTTTGACCTCAATGTTCACCACCCATATAAACCCC
















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|164086277|gb|ES016038.1|ES016038
EST:     CAGAAAATCAAGCAAAAG                         GAAGTATATGAGCAACAAAAAGAGCTTATATTAAACGGAGAAAAAATTGTT
genomic: CAGAAAATCAAGCAAAAGgtattccatc ... actttttcagGAAGTATATGAGCAACAAAAAGAGCTTATATTAAACGGAGAAAAAATTGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattgtctgttggtcagcatatcaaaatgtatttgacctatatcactttttcagGAAGTATATGAGCAACAAAAAGAGCTTATATTAAACGGAGAAAAAATTGTTCTTTCCACTCTAGGCTTTGACCTCAATGTTTATCATCCTTATAAACCCC
                               atttgac  putative branch site (score: 4)
                                           tcactttttc  putative PPT
                   atatcaaaatgtattt  TA-rich tract