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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttttttgttctgtctatgcattttttcttgattctgaatggcttagatgagatgattcctcatatataacagtgaccttttagGTATACTGATAGAAGGAAGAATGCTGCTCAACAATTTAAACAGTCCTTGACAATAGACCCTCTACTTTGGGCTGCATATGAGGAATTATGTATATTAG

Basic information

species Arabidopsis thaliana
transcript AT2G20000.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G20000.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G05640.1 (Glycine max), 3'ss of exon 4
-----------------gtacgttttttgttctgtctatgcattttttcttgattctgaatggcttagatgagatgattcctcatatataacagtgaccttttagGTATACTGATAGAAGGAAGAATGCTGCTCAACAATTTAAACAGTCCTTGACAATAGACCCTCTACTTTGGGCTGCATATGAGGAATTATGTATATTAG
                  |      | |  |  || | ||| | |||||||   | |      | |       ||  | |||   |||      || | ||| || |  ||||| |||||||| |||||    ||||| || || ||| |  |  |||| || |||||| | |||||||||||||||||||| ||||||||||
caacctaaactttaaaactttaacctctaattagtttgtgc-tattttcttatctatattcatccttct----atattccctttaataattttctgccttttcagATGCACTGACAGAAGGAAAAATGCCATACAACATTTCAAGCAGGCACTCTCAATGGATCCTCTAATGTGGGCTGCATATGAGGAATTGTGTATATTAG
















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|86071596|gb|DR367353.1|DR367353
EST:     ATCCCAAATGGTGCAGCAGGCCATTACCTTCTTGGACTTATTTACAA                         GTATACTGATAGAAGGAAGAATGCTGCTCAACAATTTAAACAGTCCTTGAC
genomic: ATCCCAAATGGTGCAGCAGGCCATTACCTTCTTGGACTTATTTACAAgtacgttttt ... gaccttttagGTATACTGATAGAAGGAAGAATGCTGCTCAACAATTTAAACAGTCCTTGAC
EST: gi|116436054|gb|EG478646.1|EG478646
EST:     ATCCCAAATGGTGCAGCAGGCCATTACCTTCTTGGACTTATTTACAA                         GTATACTGATAGAAGGAAGAATGCTGCTCAACAATTTAAACAGTCCTTGAC
genomic: ATCCCAAATGGTGCAGCAGGCCATTACCTTCTTGGACTTATTTACAAgtacgttttt ... gaccttttagGTATACTGATAGAAGGAAGAATGCTGCTCAACAATTTAAACAGTCCTTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgattctgaatggcttagatgagatgattcctcatatataacagtgaccttttagGTATACTGATAGAAGGAAGAATGCTGCTCAACAATTTAAACAGTCCTTGACAATAGACCCTCTACTTTGGGCTGCATATGAGGAATTATGTATATTAG
                                   atataac  putative branch site (score: 3)
                                               cctttt  putative PPT
                               tcatatataa  TA-rich tract