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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtaaatttgataagtcatgatggatatcctgcttgtgtcggttcattcgtatgtgcttctatgtgtctcagtagcttacattgttaatcttttgacacagAGTTACAACCGGGATCTCTTTCTGTTCCTTTACTTCCTTCTCATCATCGTTTCAGCGATAACTTCATTCACGATACATACTGATAAATCACCATTCAGCG

Basic information

species Arabidopsis thaliana
transcript AT3G06550.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G06550.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv05s0077g00620.t01 (Vitis vinifera), 3'ss of exon 5
-gtaaatttgataagtcatgatggatat-cctgcttgtgtcggttcattcgtatgtgcttctatgtgtctcagtagcttacattgttaatcttttgacacagAGTTACAACCGGGATCTCTTTCTGTTCCTTTACTTCCTTCTCATCATCGTTTCAGCGATAACTTCATTCACGATACATACTGATAAATCACCATTCAGCG
  |   | | |  | | |  ||| || |   |  |  |     ||   |  |   |      || | |||   |   |  ||||||   | | ||    |||||||||||||||||||||||| | || || ||||||||||| ||||| ||||||||  | ||||| |||| | | |||  |||||| ||| |||||   |
catgggtgtaaccattaaacatgaatttgtttagtgataatatttggctactgatttaggtaatttctctttatcattatcattgtgtgtgtgtt--tgcagAGTTACAACCGGGATCTCTTTATATTTCTCTACTTCCTTCTTATCATAGTTTCAGCAGTGACTTCCTTCAAGGTCCATCATGATAAGTCATCATTCTCTG
















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|124950120|gb|EL025608.1|EL025608
EST:     TATACTTTTACATATGTGACCGCACAGATGTCTTCAATTCATCAAAGAAG                         AGTTACAACCGGGATCTCTTTCTGTTCCT
genomic: TATACTTTTACATATGTGACCGCACAGATGTCTTCAATTCATCAAAGAAGgtgatgatga ... tttgacacagAGTTACAACCGGGATCTCTTTCTGTTCCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgtatgtgcttctatgtgtctcagtagcttacattgttaatcttttgacacagAGTTACAACCGGGATCTCTTTCTGTTCCTTTACTTCCTTCTCATCATCGTTTCAGCGATAACTTCATTCACGATACATACTGATAAATCACCATTCAGCG
                                            ttttgac  putative branch site (score: 3)
                                          tctttt  CT-rich tract
                                  attgttaatctttt  TA-rich tract