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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttttttttttttttaatatgggaacctctgtgtcacaatttttcgccattcattctcactcagctctctttctcagGCATTTGCCCTTCTTTCAGGTTATATTGACAATGAGGATTCATCTGTCCGAATTGGTGCTATTATGGGTCTCGGGATTGCATATGCGGGTTCCCAAAATG

Basic information

species Arabidopsis thaliana
transcript AT4G28470.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 15
gtgagtttttttttt------tttttaatatgggaacctctgtgtcacaatttttcgccattcattctcact--cagct--ctctttctcagGCATTTGCCCTTCTTTCAGGTTATATTGACAATGAGGATTCATCTGTCCGAATTGGTGCTATTATGGGTCTCGGGATTGCATATGCGGGTTCCCAAAATG
|||||||||||| ||      |||   | ||  ||   | ||   || |  || |     |  |   |   |  ||  |  ||| || ||||||| | || |||||    |  ||||| || || || ||  | ||  || | |||||||| ||||||||| | || ||||||||||| |||||||| ||||
gtgagtttttttattcttacctttgctagatacgagagtatgacacatatcttcttagtttctaaagtagatatcattttactccttttcagGCAATGGCACTTCTAGGTGACTATATAGATAAAGAAGACACTTCAATCAGGATTGGTGCAATTATGGGTTTGGGAATTGCATATGCTGGTTCCCAGAATG

upper sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA12G13410.1 (Glycine max), 3'ss of exon 15
gtgagttttttttttttt--------ttaatatgggaacctc-tgtgtcacaatttttcgccattcattctcactcagctctctttctcagGCATTTGCCCTTCTTTCAGGTTATATTGACAATGAGGATTCATCTGTCCGAATTGGTGCTATTATGGGTCTCGGGATTGCATATGCGGGTTCCCAAAATG
|||||||||||| || ||        |  ||||| ||   |    | ||  | ||| |    |||   ||||| |   |||  ||||  ||||| | || |||||    |  ||||| || || || ||  | ||     | |||||||| ||||||||| | || ||||||||||| |||||||| ||||
gtgagtttttttattgttaccttggctcgatatgagagtatgacatatcttagtttctaa--attagatctcattttactccttttc--agGCAATGGCACTTCTAGGTGACTATATAGATAAAGAAGACACTTCAACAAGGATTGGTGCAATTATGGGTTTGGGAATTGCATATGCTGGTTCCCAGAATG
















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|164025323|gb|ES107379.1|ES107379
EST:     TGCTGGGAGTTGGGATTGTTAATTGTGGCATTAAGAATGATTGTGACCCT                         GCATTTGCCCTT
genomic: TGCTGGGAGTTGGGATTGTTAATTGTGGCATTAAGAATGATTGTGACCCTgtgagttttt ... tctttctcagGCATTTGCCCTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaacctctgtgtcacaatttttcgccattcattctcactcagctctctttctcagGCATTTGCCCTTCTTTCAGGTTATATTGACAATGAGGATTCATCTGTCCGAATTGGTGCTATTATGGGTCTCGGGATTGCATATGCGGGTTCCCAAAATG
                               ttctcac  putative branch site (score: 2)
                               ttctcactcagctctc  CT-rich tract
             acaattttt  TA-rich tract