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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttcaatcagataatattctatctatgaagcaggttatttaatgcaaagggatcattgcaatgataatagattattctcatgattttgcagTGACCTCGCAAGAAACCAGCTTACTGGTGAGATACCAAGGTTACTCTACTGGAATGAAGTTTTACAGTATCT

Basic information

species Arabidopsis thaliana
transcript AT5G07180.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G07180.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 5
-gtgagtttcaatcagataatattctatctatgaagcaggttatttaatgcaaagggatcattgcaatgataatagattattc--tca-tgattttgcagTGACCTCGCAAGAAACCAGCTTACTGGTGAGATACCAAGGTTACTCTACTGGAATGAAGTTTTACAGTATCT
   |  | |  ||    ||| | |  ||   | |   | |   ||  ||        ||  |     |||  | | || |||   | | ||  |||  |||||||| ||  ||||||||||||| ||||||||||||||| || |||||||||||||||| || || || ||
ttagcatgtagatgttgtaaaagtgaattcctaatcaatgcccttggattgtttattattgtgttcttgaccacaaataatttggtgactgtctttatagTGACCTGGCTCGAAACCAGCTTACGGGTGAGATACCAAGGCTAATCTACTGGAATGAAGTATTGCAATACCT
















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|164199740|gb|ES093133.1|ES093133
EST:     TGGTCCAATACCAGCAACCTTAACTCAGATTCCAAACCTTAAGACCCT                         TGACCTCGCAAGAAACCAGCTTACTGGTGAGATACCAAGGTTACTCTACTG
genomic: TGGTCCAATACCAGCAACCTTAACTCAGATTCCAAACCTTAAGACCCTgtgagtttca ... gattttgcagTGACCTCGCAAGAAACCAGCTTACTGGTGAGATACCAAGGTTACTCTACTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttaatgcaaagggatcattgcaatgataatagattattctcatgattttgcagTGACCTCGCAAGAAACCAGCTTACTGGTGAGATACCAAGGTTACTCTACTGGAATGAAGTTTTACAGTATCT
 atttaat  putative branch site (score: 4)
                       aatgataatagattat  TA-rich tract