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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcggttttgcttttattacattttgtttccttgcctaaagttgtgtgattttgtgtcaaatctatatcgagcctctaaaacgagtatgctgttcccacggtcgctgataaatgttcttttgttggtctgaatcttatttaaacagTGGCCTTATGAAGCAGCTGCCATTGCTTTCGAGGCTATTCCACGTACCCTGGCTCAAAACTGTGGGGTTAACGTGATCCGTACTATGACTGCATTGCAAG

Basic information

species Arabidopsis thaliana
transcript AT5G26360.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G26360.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv07s0130g00410.t01 (Vitis vinifera), 3'ss of exon 10
----gtcggttttgcttttattacattttgtt-tccttgcctaa-agttgtgtgattttgtgtcaaatctatatcgagcctctaaaacgagtatgctgttcccacggtcgctgataaatgttcttttgttggtctgaatc-ttatttaaacagTGGCCTTATGAAGCAGCTGCCATTGCTTTCGAGGCTATTCCACGTACCCTGGCTCAAAACTGTGGGGTTAACGTGATCCGTACTATGACTGCATTGCAAG
      |  |||       | |   ||  ||  |  |||  ||| |||   |  ||||   |    |   ||||  |   |  ||   || |    | |  |  | |   |  |  ||| ||||||   |   |    || || || |  ||||||||||||||||| |||||  | ||||| |||||||| ||||| ||  |||| || || ||||||||||| ||||| || || ||||||||| | || |
gtgaaccattttaaacacgaatcagttcagtcatgtttgagtaacagtctaggaatttaaagattcaataatataaaaaata-aagttgaatggagtttggctgcagctcc--actaat-ttctttcaataaccattttcattgttgattcagTGGCCTTATGAAGCTGCTGCTGTGGCTTTTGAGGCTATACCACGGACATTGGCACAGAATTGTGGGGTTAATGTGATACGGACCATGACTGCACTCCAGG
















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|164025121|gb|EL995750.1|EL995750
EST:     GCAACAATTGAAGGCATAGAAAAG                         TGGCCTTATGAAGCAGCNGCCATTGCTTTCGAGGCTATTCCACGTACCCTG
genomic: GCAACAATTGAAGGCATAGAAAAGgtcggttttg ... atttaaacagTGGCCTTATGAAGCAGCTGCCATTGCTTTCGAGGCTATTCCACGTACCCTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcccacggtcgctgataaatgttcttttgttggtctgaatcttatttaaacagTGGCCTTATGAAGCAGCTGCCATTGCTTTCGAGGCTATTCCACGTACCCTGGCTCAAAACTGTGGGGTTAACGTGATCCGTACTATGACTGCATTGCAAG
           cgctgat  putative branch site (score: 4)
                                         tcttattt  putative PPT
                                     tgaatcttatttaaa  TA-rich tract